Note: Insertion ids mentioned in this report are for internal use (not linked to any database) and will change if the pipeline is re-run.

1 General figures

1.1 Filtering criteria

1.1.1 Lax criterion

Note: A “unique” insertion is the merged result after the allele-aware merging from both callers for each patient, and then merged across patients. If we were working with SNPs, a “unique” SNP would be, rs123, for example, defined by its position and alternative(s) allele(s). A unique insertion is defined by its position, length, and inserted sequence.

The analysis has identified:

  • 2 725 unique TE insertions, which amount to a total of 4 885 occurrences among all samples.
  • With any insertion appearing on 1.8 ± 0.41 samples (median of 2 occurrences/insertion).
  • The average insertion count per case is 2 442.5 ± 224.2.

1.1.2 Strict criterion

The stringent criterion (both callers) has left:

  • 2 106 TE insertions.
  • A total of 3 859 calls across cases.
  • A mean prevalence of 1.8 ± 0.37.
  • The median prevalence is 2.
  • Each sample carries an average of 1 929.5 ± 108.2 TE insertions.

1.2 Genotyping

  • 99 unique insertions that passed the stringent filtering. (4.7% of the total unique insertions), had at least one occurrence genotyped as 0/0.

  • These amount to 106 total count (2.7% of filter-passing occurrences).

  • 51 of these unique insertions were genotyped as 0/0 for all their occurrences, amounting to 58 insertion counts.

  • Of these fully wrong calls, 44 were only found on a single patient each (86.3% of the 51).

  • The strict criteria missed calls for 104 unique insertions (4.9%).

  • These mean a total of 104 occurrences, out of 3 859 calls that passed the stringent filter.

  • 104 unique insertions had more false negative occurrences than positive ones.

The discrepancies between genotyping and the lax filtering is also summarized in the table below.

Note: for true/false poitives/negatives, the genotypes have considered the gold standard.

Criterion

Unique INS with false positives (%)

Total false positives (%)

Unique INS (total) with all false positives

Unique INS with false negatives (%)

Total false negatives (Total positives)

Unique INS with more false negatives than positives

Strict

99
(4.7)

106
(2.7)

51
(58)

104
(4.9)

104
(3 859)

104

Lax

244
(9.0)

260
(5.3)

169
(185)

0
(0.0)

0
(4 885)

0

The next sections only take into account insertions that passed the strict criterion on at least one sample, and that were not genotyped as 0/0 on all samples.

1.2.1 Allele frequency

1.2.2 Ubiquitous TE insertions

1.2.2.1 Ubiquitous TE insertions

564 TE insertions were found on all cases in homozygosis.

Click to show table with 564 rows.

Position

Length

Type

AF

CP068277.2:7 919 418

309

SINE (AluYa5)

1

CP068277.2:17 172 541

320

SINE (AluYe5)

1

CP068277.2:20 992 774

316

SINE (AluYa5)

1

CP068277.2:23 830 977

77

Retroposon (SVA_F)

1

CP068277.2:28 942 968

324

SINE (AluYg6)

1

CP068277.2:38 352 287

74

SINE (FRAM)

1

CP068277.2:46 090 578

333

SINE (AluYb8)

1

CP068277.2:48 071 786

132

Retroposon (SVA_A)

1

CP068277.2:59 284 566

318

SINE (AluYa5)

1

CP068277.2:65 547 882

322

SINE (AluY)

1

CP068277.2:76 472 686

281

SINE (AluYa5)

1

CP068277.2:78 954 901

306

SINE (AluYb9)

1

CP068277.2:79 721 146

38

LTR (THE1D-int)

1

CP068277.2:99 356 764

110

Retroposon (SVA_A)

1

CP068277.2:111 310 370

61

LINE (L1P2)

1

CP068277.2:111 595 921

319

SINE (AluYa5)

1

CP068277.2:117 439 865

79

Retroposon (SVA_F)

1

CP068277.2:118 551 299

320

SINE (AluYa5)

1

CP068277.2:147 616 749

173

LINE (L1P1)

1

CP068277.2:147 621 768

315

SINE (AluYa5)

1

CP068277.2:149 352 606

291

SINE (AluYb8)

1

CP068277.2:158 899 112

27

LINE (L1P)

1

CP068277.2:165 036 498

272

SINE (AluYa5)

1

CP068277.2:178 395 729

46

Retroposon (SVA_F)

1

CP068277.2:181 662 904

47

Retroposon (SVA_F)

1

CP068277.2:192 243 097

40

LTR (LTR12D)

1

CP068277.2:209 987 115

121

SINE (AluSz6)

1

CP068277.2:210 459 290

89

SINE (AluJb)

1

CP068277.2:216 985 245

311

SINE (AluYk2)

1

CP068277.2:218 986 191

316

SINE (AluYk2)

1

CP068277.2:230 329 881

304

SINE (AluYb8)

1

CP068277.2:237 215 622

307

SINE (AluYa5)

1

CP068277.2:241 802 064

37

SINE (Alu)

1

CP068276.2:120 305

96

Retroposon (SVA_F)

1

CP068276.2:2 546 464

315

SINE (AluYe5)

1

CP068276.2:5 444 371

326

SINE (AluYb8)

1

CP068276.2:6 398 847

319

SINE (AluYa5)

1

CP068276.2:13 196 975

45

LTR (HERVH-int)

1

CP068276.2:13 955 731

75

LTR (MER57-int)

1

CP068276.2:34 814 746

242

SINE (AluYa5)

1

CP068276.2:42 231 893

29

SINE (Alu)

1

CP068276.2:44 593 483

124

Retroposon (SVA_F)

1

CP068276.2:44 593 484

84

Retroposon (SVA_F)

1

CP068276.2:44 594 092

211

Retroposon (SVA_F)

1

CP068276.2:44 604 010

316

SINE (AluYa5)

1

CP068276.2:50 018 029

132

SINE (AluY)

1

CP068276.2:54 460 543

251

SINE (AluY)

1

CP068276.2:64 261 102

61

LTR (HERVH-int)

1

CP068276.2:65 116 309

305

SINE (AluYc)

1

CP068276.2:65 348 770

48

Retroposon (SVA_F)

1

CP068276.2:74 292 982

328

SINE (AluY)

1

CP068276.2:102 198 725

315

SINE (AluYa5)

1

CP068276.2:107 771 785

320

SINE (AluYa5)

1

CP068276.2:121 551 351

57

LTR (MSTA)

1

CP068276.2:123 008 476

317

SINE (AluYa5)

1

CP068276.2:123 048 382

50

LINE (L1M1)

1

CP068276.2:123 569 366

133

SINE (AluSp)

1

CP068276.2:123 667 376

330

SINE (AluYb8)

1

CP068276.2:125 860 606

118

LTR (LTR12C)

1

CP068276.2:126 051 006

332

SINE (AluYa5)

1

CP068276.2:131 521 066

317

SINE (AluYe5)

1

CP068276.2:137 865 383

60

SINE (AluY)

1

CP068276.2:141 752 398

57

LINE (L1M2)

1

CP068276.2:145 037 173

324

SINE (AluYb8)

1

CP068276.2:150 220 893

319

SINE (AluYa5)

1

CP068276.2:153 756 655

320

SINE (AluY)

1

CP068276.2:156 746 251

39

Retroposon (SVA_B)

1

CP068276.2:158 030 254

325

SINE (AluYb9)

1

CP068276.2:169 505 778

323

SINE (AluY)

1

CP068276.2:170 612 969

307

SINE (AluYk12)

1

CP068276.2:175 359 957

318

SINE (AluYa5)

1

CP068276.2:179 802 853

48

Retroposon (SVA_F)

1

CP068276.2:182 940 163

309

SINE (AluYa5)

1

CP068276.2:184 038 383

33

LINE (L1P4)

1

CP068276.2:192 183 565

317

SINE (AluYa5)

1

CP068276.2:192 186 027

325

SINE (AluYa5)

1

CP068276.2:196 356 056

275

SINE (AluYa5)

1

CP068276.2:197 233 937

327

SINE (AluYb8)

1

CP068276.2:198 513 690

136

SINE (AluSg)

1

CP068276.2:200 963 886

45

SINE (FRAM)

1

CP068276.2:208 081 694

324

SINE (AluJb)

1

CP068276.2:208 519 865

314

SINE (AluYa5)

1

CP068276.2:214 127 683

242

SINE (AluYa5)

1

CP068276.2:215 319 682

77

Retroposon (SVA_F)

1

CP068276.2:215 369 785

171

SINE (AluYb9)

1

CP068276.2:232 042 724

319

SINE (AluYk2)

1

CP068276.2:233 687 447

149

SINE (AluSx)

1

CP068275.2:1 238 682

63

LTR (HERVH-int)

1

CP068275.2:20 459 977

66

LTR (LTR25-int)

1

CP068275.2:24 054 053

254

SINE (AluYi6)

1

CP068275.2:26 747 814

317

SINE (AluYk2)

1

CP068275.2:29 581 534

319

SINE (AluYb8)

1

CP068275.2:32 897 378

95

LINE (L1M4)

1

CP068275.2:34 675 723

40

LINE (L1MA1)

1

CP068275.2:36 799 001

305

SINE (AluYc)

1

CP068275.2:38 085 678

298

Retroposon (SVA_F)

1

CP068275.2:38 119 250

134

SINE (AluJb)

1

CP068275.2:45 517 532

316

SINE (AluY)

1

CP068275.2:48 240 089

116

Retroposon (SVA_F)

1

CP068275.2:50 833 539

38

Retroposon (SVA_C)

1

CP068275.2:50 871 694

344

SINE (AluY)

1

CP068275.2:58 330 973

39

Retroposon (SVA_B)

1

CP068275.2:61 714 843

176

Retroposon (SVA_F)

1

CP068275.2:63 598 884

311

SINE (AluYb8)

1

CP068275.2:65 941 603

35

LINE (L1PA6)

1

CP068275.2:66 758 056

136

SINE (AluJr4)

1

CP068275.2:66 961 938

131

LINE (L1P3)

1

CP068275.2:68 858 645

274

SINE (AluYe5)

1

CP068275.2:68 878 080

290

SINE (AluYa5)

1

CP068275.2:80 303 273

45

LINE (L1PREC2)

1

CP068275.2:82 376 966

107

LTR (MER4E1)

1

CP068275.2:83 763 966

254

LINE (L1PA8A)

1

CP068275.2:96 460 083

73

Retroposon (SVA_A)

1

CP068275.2:100 887 226

232

LTR (LTR8)

1

CP068275.2:112 582 135

127

LINE (L1PA16)

1

CP068275.2:114 228 331

327

SINE (AluYb9)

1

CP068275.2:114 926 706

49

LINE (L1P3)

1

CP068275.2:118 025 861

332

SINE (AluYa8)

1

CP068275.2:125 139 153

324

SINE (AluYb8)

1

CP068275.2:127 413 483

317

SINE (AluYa5)

1

CP068275.2:132 084 525

48

Retroposon (SVA_F)

1

CP068275.2:132 210 422

310

SINE (AluYb8)

1

CP068275.2:136 876 080

57

LINE (L1MCa)

1

CP068275.2:143 552 741

318

SINE (AluYa5)

1

CP068275.2:147 504 053

77

LTR (LTR12D)

1

CP068275.2:152 131 587

97

Retroposon (SVA_F)

1

CP068275.2:152 131 779

252

Retroposon (SVA_E)

1

CP068275.2:174 782 780

119

LTR (LTR12C)

1

CP068275.2:189 926 620

313

SINE (AluYk2)

1

CP068275.2:191 982 178

322

SINE (AluYb8)

1

CP068275.2:198 426 294

61

LINE (L1M1)

1

CP068275.2:200 460 370

71

SINE (AluJb)

1

CP068274.2:4 318 462

65

LTR (LTR12_v)

1

CP068274.2:4 626 805

51

SINE (MIR)

1

CP068274.2:20 388 569

987

LINE (L1M5)

1

CP068274.2:38 777 883

75

Retroposon (SVA_B)

1

CP068274.2:38 778 081

181

Retroposon (SVA_E)

1

CP068274.2:39 675 502

162

SINE (AluSx)

1

CP068274.2:44 835 889

174

SINE (AluYb8)

1

CP068274.2:58 431 094

242

SINE (AluYa5)

1

CP068274.2:58 620 850

322

SINE (AluYb8)

1

CP068274.2:59 545 991

194

SINE (AluYc)

1

CP068274.2:67 669 116

731

LTR (LTR25-int)

1

CP068274.2:67 788 030

290

SINE (AluY)

1

CP068274.2:71 961 165

151

SINE (AluYb8)

1

CP068274.2:73 581 960

186

LINE (L1PA2)

1

CP068274.2:88 719 288

308

SINE (AluYa5)

1

CP068274.2:89 207 100

34

SINE (Alu)

1

CP068274.2:93 980 210

61

LTR (MLT1A)

1

CP068274.2:98 264 406

317

SINE (AluYb8)

1

CP068274.2:99 966 117

316

SINE (AluYb9)

1

CP068274.2:119 058 267

27

LTR (THE1-int)

1

CP068274.2:123 023 912

318

SINE (AluYa5)

1

CP068274.2:136 997 523

414

LINE (L1HS)

1

CP068274.2:137 536 644

411

LTR (HERVL40-int)

1

CP068274.2:142 173 781

48

Retroposon (SVA_F)

1

CP068274.2:145 008 461

48

LTR (THE1D)

1

CP068274.2:147 791 504

326

SINE (AluYa5)

1

CP068274.2:153 595 372

142

LINE (L1P3)

1

CP068274.2:153 696 604

324

SINE (AluYk11)

1

CP068274.2:153 984 112

97

Retroposon (SVA_F)

1

CP068274.2:154 538 658

126

Retroposon (SVA_F)

1

CP068274.2:158 831 227

103

SINE (AluYd8)

1

CP068274.2:166 928 648

313

SINE (AluYb8)

1

CP068274.2:171 244 192

111

LTR (MER4A)

1

CP068274.2:176 462 509

318

SINE (AluY)

1

CP068274.2:181 862 706

314

SINE (AluYi6)

1

CP068274.2:184 287 169

205

Retroposon (SVA_A)

1

CP068274.2:188 770 999

325

SINE (AluSx)

1

CP068274.2:188 804 270

286

SINE (AluYk12)

1

CP068273.2:1 857 117

311

SINE (AluYb8)

1

CP068273.2:6 146 641

311

SINE (AluY)

1

CP068273.2:12 123 868

302

SINE (AluYa5)

1

CP068273.2:12 256 876

29

LINE (L1PA14)

1

CP068273.2:16 655 697

310

SINE (AluYg6)

1

CP068273.2:24 017 957

285

SINE (AluY)

1

CP068273.2:25 758 140

221

LINE (L1P1)

1

CP068273.2:26 290 891

59

LTR (LTR5A)

1

CP068273.2:27 677 538

122

SINE (AluJb)

1

CP068273.2:29 034 801

73

Retroposon (SVA_B)

1

CP068273.2:38 033 737

91

LTR (Harlequin-int)

1

CP068273.2:43 769 164

68

LTR (MER50B)

1

CP068273.2:43 795 329

321

SINE (AluYb8)

1

CP068273.2:56 842 940

47

Retroposon (SVA_F)

1

CP068273.2:66 799 023

343

Retroposon (SVA_F)

1

CP068273.2:69 790 093

650

LINE (L1HS)

1

CP068273.2:69 886 321

61

Retroposon (SVA_D)

1

CP068273.2:80 745 714

312

SINE (AluY)

1

CP068273.2:83 675 995

306

SINE (AluYh7)

1

CP068273.2:100 778 994

312

SINE (AluY)

1

CP068273.2:103 260 583

41

LTR (LTR12E)

1

CP068273.2:105 102 556

38

LTR (LTR19A)

1

CP068273.2:108 350 710

102

LINE (L1M5)

1

CP068273.2:111 960 940

186

SINE (AluYc)

1

CP068273.2:118 013 084

306

SINE (AluY)

1

CP068273.2:121 495 295

313

SINE (AluY)

1

CP068273.2:134 951 042

305

SINE (AluYa5)

1

CP068273.2:138 669 937

65

LTR (LTR12)

1

CP068273.2:139 924 858

293

SINE (AluSx)

1

CP068273.2:143 069 211

312

SINE (AluYa5)

1

CP068273.2:147 526 118

318

SINE (AluYb8)

1

CP068273.2:180 746 045

173

SINE (AluY)

1

CP068272.2:5 217 730

320

SINE (AluY)

1

CP068272.2:5 704 809

356

Retroposon (SVA_F)

1

CP068272.2:5 938 114

338

SINE (AluYa5)

1

CP068272.2:10 902 109

134

SINE (AluSz)

1

CP068272.2:13 394 506

330

SINE (AluYb8)

1

CP068272.2:15 598 802

39

Retroposon (SVA_E)

1

CP068272.2:18 770 685

314

SINE (AluY)

1

CP068272.2:19 027 502

322

SINE (AluYb9)

1

CP068272.2:28 094 493

329

SINE (AluYb8)

1

CP068272.2:30 339 365

39

Retroposon (SVA_D)

1

CP068272.2:32 343 356

294

SINE (AluSc)

1

CP068272.2:32 604 181

308

SINE (AluY)

1

CP068272.2:42 430 460

160

SINE (AluSg4)

1

CP068272.2:43 757 249

314

SINE (AluYa5)

1

CP068272.2:45 127 498

324

SINE (AluYe5)

1

CP068272.2:45 835 182

327

SINE (AluY)

1

CP068272.2:54 692 012

140

SINE (AluSg)

1

CP068272.2:74 838 911

39

Retroposon (SVA_B)

1

CP068272.2:86 651 704

330

SINE (AluY)

1

CP068272.2:100 823 615

45

Retroposon (SVA_F)

1

CP068272.2:105 950 363

309

SINE (AluYa5)

1

CP068272.2:107 853 091

317

SINE (AluYb8)

1

CP068272.2:109 130 963

270

Retroposon (SVA_E)

1

CP068272.2:109 208 497

105

SINE (AluJb)

1

CP068272.2:115 951 896

105

SINE (AluSc)

1

CP068272.2:119 490 091

295

SINE (AluYa5)

1

CP068272.2:138 121 232

276

SINE (AluYa5)

1

CP068272.2:142 199 747

131

LTR (LTR12)

1

CP068272.2:157 199 315

307

SINE (AluY)

1

CP068272.2:158 278 908

327

SINE (AluYb8)

1

CP068272.2:159 090 611

39

LTR (LTR8)

1

CP068271.2:2 382 179

77

Retroposon (SVA_F)

1

CP068271.2:6 790 042

96

Retroposon (SVA_F)

1

CP068271.2:12 372 986

319

SINE (AluYb8)

1

CP068271.2:12 396 187

31

SINE (AluSg)

1

CP068271.2:14 540 334

319

SINE (AluYb8)

1

CP068271.2:29 929 681

37

LTR (HERVH-int)

1

CP068271.2:38 447 512

50

LTR (LTR1)

1

CP068271.2:38 626 104

315

SINE (AluYa5)

1

CP068271.2:38 630 323

336

SINE (AluYb8)

1

CP068271.2:39 867 657

329

SINE (AluYb8)

1

CP068271.2:48 018 075

321

SINE (AluYa5)

1

CP068271.2:50 732 080

90

LINE (L1PA4)

1

CP068271.2:56 334 427

321

SINE (AluYb8)

1

CP068271.2:67 832 962

315

SINE (AluYa5)

1

CP068271.2:77 895 803

300

SINE (AluSg)

1

CP068271.2:78 216 802

319

SINE (AluYa5)

1

CP068271.2:81 683 820

41

LINE (L1M4)

1

CP068271.2:83 623 827

326

SINE (AluYj4)

1

CP068271.2:84 052 406

316

SINE (AluYa5)

1

CP068271.2:84 568 345

317

SINE (AluYg6)

1

CP068271.2:85 626 331

314

SINE (AluY)

1

CP068271.2:86 522 262

271

LINE (L1HS)

1

CP068271.2:90 001 659

316

SINE (AluYa5)

1

CP068271.2:91 220 124

318

SINE (AluYa5)

1

CP068271.2:103 838 055

127

SINE (AluJb)

1

CP068271.2:103 937 188

127

SINE (AluJb)

1

CP068271.2:109 206 992

118

LTR (LTR12D)

1

CP068271.2:110 968 118

328

SINE (AluYb8)

1

CP068271.2:115 628 403

310

SINE (AluYa5)

1

CP068271.2:119 569 637

298

SINE (AluYa5)

1

CP068271.2:119 758 768

316

SINE (AluYe5)

1

CP068271.2:121 741 949

31

SINE (Alu)

1

CP068271.2:130 830 383

317

SINE (AluSx)

1

CP068271.2:132 541 792

144

SINE (AluJb)

1

CP068271.2:134 472 994

155

SINE (AluSx)

1

CP068271.2:136 812 007

334

SINE (AluYa5)

1

CP068271.2:146 522 790

32

LINE (L1P1)

1

CP068271.2:153 713 300

130

SINE (AluSx)

1

CP068271.2:155 766 181

330

SINE (AluYb8)

1

CP068270.2:6 485 699

318

SINE (AluYe5)

1

CP068270.2:9 270 409

324

SINE (AluYa5)

1

CP068270.2:12 907 672

329

SINE (AluYa5)

1

CP068270.2:23 488 427

39

SINE (Alu)

1

CP068270.2:34 580 253

67

LINE (L1M3)

1

CP068270.2:37 215 036

30

DNA (Tigger2a)

1

CP068270.2:41 686 987

324

SINE (AluYb8)

1

CP068270.2:60 716 533

315

SINE (AluYa5)

1

CP068270.2:62 176 579

46

Retroposon (SVA_F)

1

CP068270.2:66 658 366

175

Retroposon (SVA_F)

1

CP068270.2:87 814 363

48

Retroposon (SVA_F)

1

CP068270.2:93 464 962

163

LINE (L1PB2)

1

CP068270.2:98 966 642

39

Retroposon (SVA_D)

1

CP068270.2:99 578 329

325

SINE (AluSx)

1

CP068270.2:107 844 447

325

SINE (AluYb8)

1

CP068270.2:128 443 757

46

Retroposon (SVA_F)

1

CP068270.2:132 610 615

40

LTR (LTR12E)

1

CP068269.2:6 664 828

135

SINE (AluY)

1

CP068269.2:6 795 499

39

Retroposon (SVA_D)

1

CP068269.2:6 804 463

98

Retroposon (SVA_F)

1

CP068269.2:7 855 153

327

SINE (AluYb9)

1

CP068269.2:8 652 319

274

SINE (AluYa5)

1

CP068269.2:9 145 491

320

SINE (AluYb8)

1

CP068269.2:16 401 598

326

SINE (AluY)

1

CP068269.2:21 052 363

330

SINE (AluYa5)

1

CP068269.2:30 020 771

69

LINE (L1M3)

1

CP068269.2:33 442 084

36

Retroposon (SVA_F)

1

CP068269.2:34 156 745

66

Retroposon (SVA_F)

1

CP068269.2:41 137 102

327

SINE (AluYa5)

1

CP068269.2:41 633 588

68

LINE (L1PA2)

1

CP068269.2:41 696 039

86

LINE (L1P4b)

1

CP068269.2:84 265 383

48

SINE (Alu)

1

CP068269.2:87 062 332

178

SINE (AluYb8)

1

CP068269.2:91 269 591

318

SINE (AluY)

1

CP068269.2:92 388 707

326

SINE (AluYb8)

1

CP068269.2:96 285 779

31

SINE (Alu)

1

CP068269.2:112 443 781

81

SINE (AluSz)

1

CP068269.2:138 384 259

298

LINE (L1M4)

1

CP068269.2:143 939 557

43

SINE (AluYi6)

1

CP068268.2:1 248 623

326

SINE (AluYa5)

1

CP068268.2:3 057 186

34

SINE (AluYh3)

1

CP068268.2:5 118 840

47

LTR (MER39B)

1

CP068268.2:9 275 805

273

Retroposon (SVA_A)

1

CP068268.2:21 756 235

35

SINE (AluJb)

1

CP068268.2:29 201 482

188

LTR (MLT1F-int)

1

CP068268.2:46 272 895

39

Retroposon (SVA_C)

1

CP068268.2:55 788 354

125

LINE (L1M4)

1

CP068268.2:68 711 145

32

LTR (MSTB2)

1

CP068268.2:87 084 164

304

SINE (AluY)

1

CP068268.2:96 787 855

315

SINE (AluYa5)

1

CP068268.2:97 822 112

47

Retroposon (SVA_F)

1

CP068268.2:105 697 311

328

SINE (AluY)

1

CP068268.2:116 480 342

27

LINE (L1P1)

1

CP068268.2:120 078 047

39

Retroposon (SVA_C)

1

CP068268.2:123 851 456

319

SINE (AluY)

1

CP068268.2:127 459 264

66

LINE (L1M2)

1

CP068268.2:131 025 575

97

LINE (L1PA7)

1

CP068267.2:473 330

320

SINE (AluYe5)

1

CP068267.2:9 522 489

36

SINE (AluY)

1

CP068267.2:9 857 725

318

SINE (AluYb8)

1

CP068267.2:22 361 771

123

LINE (L1PA16)

1

CP068267.2:25 682 675

345

SINE (AluYa5)

1

CP068267.2:33 652 002

320

SINE (AluYk2)

1

CP068267.2:44 657 278

50

SINE (AluYh7)

1

CP068267.2:47 253 972

175

Retroposon (SVA_F)

1

CP068267.2:55 579 693

317

SINE (AluY)

1

CP068267.2:56 473 791

317

SINE (AluYg6)

1

CP068267.2:60 485 034

79

LINE (L1HS)

1

CP068267.2:63 882 701

259

LINE (L1MB8)

1

CP068267.2:74 485 830

59

SINE (AluJb)

1

CP068267.2:75 339 543

77

Retroposon (SVA_F)

1

CP068267.2:77 028 418

177

Retroposon (SVA_F)

1

CP068267.2:80 466 705

125

LTR (LTR12D)

1

CP068267.2:82 117 597

39

Retroposon (SVA_C)

1

CP068267.2:95 142 638

42

SINE (Alu)

1

CP068267.2:96 512 809

42

LTR (LTR46)

1

CP068267.2:101 555 768

328

SINE (AluYb8)

1

CP068267.2:104 919 972

320

SINE (AluYa5)

1

CP068267.2:106 732 181

290

SINE (AluY)

1

CP068267.2:118 715 549

133

SINE (AluSx)

1

CP068267.2:120 365 075

37

SINE (AluYm1)

1

CP068267.2:125 878 132

153

LINE (L1PA10)

1

CP068267.2:130 127 567

38

Retroposon (SVA_B)

1

CP068266.2:413 743

31

SINE (AluSp)

1

CP068266.2:5 668 028

308

SINE (AluYd8)

1

CP068266.2:6 807 792

255

SINE (AluYk2)

1

CP068266.2:7 721 119

143

SINE (AluSg)

1

CP068266.2:7 830 662

336

SINE (AluYb8)

1

CP068266.2:8 456 751

319

SINE (AluYg6)

1

CP068266.2:8 608 370

115

Retroposon (SVA_B)

1

CP068266.2:8 608 845

46

Retroposon (SVA_F)

1

CP068266.2:12 283 010

97

Retroposon (SVA_F)

1

CP068266.2:14 045 351

192

Retroposon (SVA_C)

1

CP068266.2:29 543 251

313

SINE (AluYa5)

1

CP068266.2:30 029 848

199

SINE (AluYa5)

1

CP068266.2:41 239 964

345

LINE (L1P3)

1

CP068266.2:44 984 372

311

SINE (AluYa5)

1

CP068266.2:45 611 156

323

SINE (AluYb8)

1

CP068266.2:51 007 643

447

SINE (AluSx)

1

CP068266.2:56 751 565

48

Retroposon (SVA_F)

1

CP068266.2:64 720 062

176

SINE (AluYa5)

1

CP068266.2:70 065 499

63

LTR (HERVH-int)

1

CP068266.2:71 354 899

23

LTR (LTR12E)

1

CP068266.2:77 423 086

101

SINE (MIRb)

1

CP068266.2:77 981 522

327

SINE (AluYb8)

1

CP068266.2:86 830 422

142

SINE (AluSx)

1

CP068266.2:87 458 390

315

SINE (AluY)

1

CP068266.2:94 256 702

321

SINE (AluYa5)

1

CP068266.2:96 285 798

317

SINE (AluYa5)

1

CP068266.2:96 952 164

313

SINE (AluYa5)

1

CP068266.2:98 553 558

310

SINE (AluSx)

1

CP068266.2:101 881 504

99

SINE (AluYb8)

1

CP068266.2:126 429 324

314

SINE (AluYb8)

1

CP068265.2:5 252 040

71

LINE (L1MB2)

1

CP068265.2:13 715 682

196

SINE (AluYb8)

1

CP068265.2:19 743 748

49

LTR (LTR3B_v)

1

CP068265.2:20 642 557

145

Retroposon (SVA_E)

1

CP068265.2:20 642 901

48

Retroposon (SVA_F)

1

CP068265.2:42 185 736

1 644

Retroposon (SVA_F)

1

CP068265.2:45 366 990

318

SINE (AluYa5)

1

CP068265.2:45 691 032

310

SINE (AluY)

1

CP068265.2:45 736 391

76

Retroposon (SVA_F)

1

CP068265.2:49 104 652

46

LINE (L1PA8)

1

CP068265.2:50 293 367

95

Retroposon (SVA_F)

1

CP068265.2:60 433 754

322

SINE (AluYa5)

1

CP068265.2:60 661 632

155

LINE (L1PA8A)

1

CP068265.2:62 171 725

317

SINE (AluYa5)

1

CP068265.2:69 509 379

322

SINE (AluYb8)

1

CP068265.2:81 206 374

108

LTR (MLT1A1)

1

CP068265.2:82 608 310

219

SINE (AluYc)

1

CP068265.2:84 838 216

167

SINE (AluYa5)

1

CP068265.2:85 705 616

304

SINE (AluYa5)

1

CP068265.2:85 943 033

288

SINE (AluYa5)

1

CP068265.2:88 073 850

315

SINE (AluYa5)

1

CP068265.2:88 973 266

148

SINE (AluY)

1

CP068265.2:89 698 651

101

LTR (LTR12C)

1

CP068265.2:98 181 350

134

SINE (AluYk2)

1

CP068265.2:100 191 900

100

LTR (LTR12C)

1

CP068265.2:109 388 985

314

SINE (AluYb8)

1

CP068265.2:109 862 683

128

LTR (LTR12C)

1

CP068265.2:109 863 304

40

LTR (LTR12E)

1

CP068265.2:110 189 655

246

SINE (AluY)

1

CP068265.2:112 115 809

312

SINE (AluYa5)

1

CP068264.2:4 080 751

330

SINE (AluYb8)

1

CP068264.2:4 176 442

306

SINE (AluYa5)

1

CP068264.2:18 410 919

164

SINE (AluSx4)

1

CP068264.2:19 797 762

40

LTR (LTR12B)

1

CP068264.2:20 430 427

311

SINE (AluYa5)

1

CP068264.2:22 030 070

438

LINE (L1HS)

1

CP068264.2:25 634 689

47

Retroposon (SVA_F)

1

CP068264.2:25 671 371

318

SINE (AluY)

1

CP068264.2:28 610 960

305

SINE (AluYa5)

1

CP068264.2:29 128 780

87

SINE (AluJo)

1

CP068264.2:29 131 238

313

SINE (AluY)

1

CP068264.2:31 745 103

39

Retroposon (SVA_C)

1

CP068264.2:34 300 938

324

SINE (AluYa5)

1

CP068264.2:34 313 688

131

SINE (AluYe5)

1

CP068264.2:50 176 931

283

SINE (AluYa5)

1

CP068264.2:53 285 736

306

SINE (AluYa5)

1

CP068264.2:67 764 612

311

SINE (AluSx)

1

CP068264.2:70 959 770

39

Retroposon (SVA_F)

1

CP068264.2:88 788 220

312

SINE (AluYa5)

1

CP068264.2:92 910 435

53

SINE (Alu)

1

CP068263.2:20 376 616

44

SINE (Alu)

1

CP068263.2:25 263 076

324

SINE (AluYb8)

1

CP068263.2:32 444 264

321

SINE (AluY)

1

CP068263.2:34 360 211

346

SINE (AluYa5)

1

CP068263.2:38 489 398

36

Retroposon (SVA_F)

1

CP068263.2:38 614 143

315

SINE (AluYg6)

1

CP068263.2:53 913 589

228

Retroposon (SVA_F)

1

CP068263.2:56 106 612

319

SINE (AluYc)

1

CP068263.2:58 727 456

317

SINE (AluY)

1

CP068263.2:71 508 181

321

SINE (AluY)

1

CP068263.2:86 307 146

147

Retroposon (SVA_E)

1

CP068263.2:92 039 791

305

SINE (AluYa5)

1

CP068263.2:95 045 999

328

SINE (AluYa5)

1

CP068263.2:97 321 467

49

SINE (Alu)

1

CP068263.2:98 667 707

310

SINE (AluY)

1

CP068262.2:480 325

311

SINE (AluSx)

1

CP068262.2:4 839 789

42

SINE (Alu)

1

CP068262.2:15 116 749

85

SINE (AluSc)

1

CP068262.2:21 521 201

122

SINE (AluJb)

1

CP068262.2:24 129 334

325

SINE (AluY)

1

CP068262.2:62 994 200

43

SINE (AluJo)

1

CP068262.2:63 015 018

315

SINE (AluYa5)

1

CP068262.2:64 555 275

134

SINE (AluSz)

1

CP068262.2:64 559 334

55

SINE (AluSx3)

1

CP068262.2:75 622 940

53

SINE (AluSg)

1

CP068262.2:83 862 434

133

SINE (AluSc8)

1

CP068261.2:455 384

96

Retroposon (SVA_F)

1

CP068261.2:3 433 087

132

SINE (AluSg)

1

CP068261.2:5 924 812

314

SINE (AluYa5)

1

CP068261.2:11 880 696

59

LTR (HERVH-int)

1

CP068261.2:37 220 145

335

SINE (AluYb8)

1

CP068261.2:38 008 694

192

SINE (AluYc)

1

CP068261.2:51 788 427

313

SINE (AluYb8)

1

CP068261.2:53 829 064

311

SINE (AluYa5)

1

CP068261.2:55 582 094

669

LINE (L1PREC2)

1

CP068261.2:61 447 465

325

SINE (AluY)

1

CP068261.2:75 514 650

307

SINE (AluYg6)

1

CP068261.2:75 907 696

46

SINE (AluJr4)

1

CP068261.2:75 935 935

315

SINE (AluYb8)

1

CP068261.2:76 696 269

95

SINE (AluY)

1

CP068261.2:78 133 410

332

SINE (AluYb8)

1

CP068261.2:82 055 352

326

SINE (AluYb8)

1

CP068260.2:8 797 339

111

SINE (AluJo)

1

CP068260.2:29 765 946

318

SINE (AluYb8)

1

CP068260.2:35 273 621

317

SINE (AluYa5)

1

CP068260.2:39 128 268

317

SINE (AluYa5)

1

CP068260.2:40 963 076

315

SINE (AluY)

1

CP068260.2:46 361 667

324

SINE (AluYb8)

1

CP068260.2:46 381 044

32

SINE (Alu)

1

CP068260.2:53 663 279

320

SINE (AluYb8)

1

CP068260.2:53 996 308

73

LINE (L1PBa)

1

CP068260.2:66 072 639

337

SINE (AluY)

1

CP068260.2:76 087 428

324

SINE (AluYb8)

1

CP068260.2:77 479 251

472

LINE (L1HS)

1

CP068259.2:646 264

72

SINE (AluSp)

1

CP068259.2:773 677

308

SINE (AluJb)

1

CP068259.2:2 535 989

124

SINE (AluJb)

1

CP068259.2:6 141 006

264

SINE (AluYb8)

1

CP068259.2:6 151 665

290

SINE (AluSc8)

1

CP068259.2:6 976 775

329

SINE (AluYb8)

1

CP068259.2:7 740 152

314

SINE (AluYb8)

1

CP068259.2:16 391 116

140

SINE (AluJb)

1

CP068259.2:18 052 543

47

Retroposon (SVA_F)

1

CP068259.2:29 865 974

312

SINE (AluYb8)

1

CP068259.2:36 653 353

175

Retroposon (SVA_F)

1

CP068259.2:36 780 217

299

SINE (AluY)

1

CP068259.2:49 334 643

307

SINE (AluY)

1

CP068259.2:53 674 286

101

SINE (AluJb)

1

CP068259.2:54 049 533

135

SINE (AluSx)

1

CP068259.2:55 665 437

134

SINE (AluSx)

1

CP068259.2:56 876 654

36

SINE (Alu)

1

CP068259.2:58 069 652

330

SINE (AluJb)

1

CP068259.2:59 606 629

325

SINE (AluYa5)

1

CP068258.2:5 422 575

49

LTR (MSTB)

1

CP068258.2:5 544 074

303

SINE (AluYc)

1

CP068258.2:5 544 134

289

SINE (AluYc)

1

CP068258.2:16 945 493

337

SINE (AluY)

1

CP068258.2:16 956 782

41

SINE (AluYa5)

1

CP068258.2:21 237 843

1 434

LINE (L1M3)

1

CP068258.2:30 503 817

38

Retroposon (SVA_C)

1

CP068258.2:30 946 834

128

LTR (LTR5A)

1

CP068258.2:31 430 118

812

LTR (PRIMA41-int)

1

CP068258.2:31 915 417

390

LINE (L1P1)

1

CP068258.2:38 114 785

94

SINE (AluSz6)

1

CP068258.2:55 429 289

321

SINE (AluYb8)

1

CP068258.2:62 091 491

125

SINE (AluSc)

1

CP068258.2:62 926 797

317

SINE (AluYa5)

1

CP068258.2:63 187 711

320

SINE (AluYb8)

1

CP068258.2:63 442 811

39

Retroposon (SVA_D)

1

CP068257.2:11 757 340

320

SINE (AluYa5)

1

CP068257.2:12 279 099

187

Retroposon (SVA_B)

1

CP068257.2:20 801 787

336

SINE (AluYb8)

1

CP068257.2:21 725 996

321

SINE (AluYk2)

1

CP068257.2:34 874 715

321

SINE (AluYb8)

1

CP068257.2:38 974 145

118

SINE (AluYa5)

1

CP068257.2:42 828 950

134

SINE (AluSz)

1

CP068256.2:17 900 864

326

SINE (AluYb8)

1

CP068256.2:22 593 267

314

SINE (AluYa5)

1

CP068256.2:25 763 740

142

SINE (AluSc8)

1

CP068256.2:29 242 941

314

SINE (AluYa5)

1

CP068256.2:32 276 540

316

SINE (AluY)

1

CP068256.2:32 611 949

103

LTR (MER11C)

1

CP068256.2:32 967 701

40

LTR (HERVH-int)

1

CP068256.2:34 820 706

63

SINE (AluYh7)

1

CP068256.2:43 634 478

325

SINE (AluYb8)

1

CP068255.2:247 895

164

SINE (AluJb)

1

CP068255.2:295 108

164

SINE (AluSx)

1

CP068255.2:3 778 903

57

LINE (L1PB1)

1

CP068255.2:22 237 816

315

SINE (AluY)

1

CP068255.2:24 293 369

129

Retroposon (SVA_F)

1

CP068255.2:25 517 583

333

SINE (AluYb8)

1

CP068255.2:31 581 182

315

SINE (AluY)

1

CP068255.2:45 336 671

221

LINE (L1M4b)

1

CP068255.2:45 683 115

125

Retroposon (SVA_F)

1

CP068255.2:52 216 963

324

SINE (AluYb8)

1

CP068255.2:56 310 479

309

LINE (L1P2)

1

CP068255.2:56 311 246

122

LINE (L1P1)

1

CP068255.2:65 312 828

122

LINE (L2a)

1

CP068255.2:83 656 504

86

LINE (L1MC5)

1

CP068255.2:84 713 986

311

SINE (AluYa5)

1

CP068255.2:85 441 294

40

LTR (LTR12B)

1

CP068255.2:85 459 363

450

LINE (L1P4)

1

CP068255.2:86 915 067

295

SINE (AluYb8)

1

CP068255.2:116 082 428

329

SINE (AluY)

1

CP068255.2:146 566 678

210

LINE (L1P2)

1

CP086569.2:242 043

168

SINE (AluSx)

1

CP086569.2:544 722

162

Retroposon (SVA_E)

1

CP086569.2:739 730

308

SINE (AluSx)

1

CP086569.2:949 758

135

SINE (AluSq)

1


  • 1 815 TE insertions were found with an AF ≥ 0.5.
A Manhattan plot of AFs is shown below.
Allele frequency is shown for insertions for each chromosome. Each dot marks a different insertion.

Allele frequency is shown for insertions for each chromosome. Each dot marks a different insertion.

1.2.3 Genome distribution

A) Unique TE insertions occurences on the genome. B) Gene annotations of TE insertions on the genome. A single TE may be annotated more than once.

  1. Unique TE insertions occurences on the genome. B) Gene annotations of TE insertions on the genome. A single TE may be annotated more than once.

2 Analysis by TE class

This is the classification of TEs by class (I or II), family (e.g., SINE), subfamily (e.g., Alu) and name (e.g., AluY). SVA, Alu and L1 elements have their own table on the Class I section.

Repeat
family

Repeat
subfamily

Unique

Total
(lax)

Total
(strict)

DNA

hAT

4

7

7

TcMar

1

2

2

LINE

L1

103

199

192

L2

2

4

2

LTR

ERV1

42

72

67

ERVK

5

10

10

ERVL

5

10

10

Retroposon

SVA

151

279

244

SINE

Alu

783

1 501

1 488

MIR

1

2

2

Total

-

1 097

2 086

2 024

2.1 Class I Elements

2.1.1 Distribution

A) Unique class I TE insertions occurrences on the genome. B) Gene annotations of class I TE insertions on the genome. A single TE may be annotated more than once.

  1. Unique class I TE insertions occurrences on the genome. B) Gene annotations of class I TE insertions on the genome. A single TE may be annotated more than once.

Detailed classification

Count of SVA elements by name

Name

Unique

Total
(lax)

Total
(strict)

SVA A

13

21

20

SVA B

4

8

8

SVA D

8

15

13

SVA E

23

42

38

SVA F

101

189

161

SVA F1

2

4

4

Total

151

279

244

Click to show table with Alu counts by name.
Count of _Alu_ elements by name

Name

Unique

Total
(lax)

Total
(strict)

Alu

4

8

8

AluJb

21

39

39

AluJo

4

7

6

AluJr4

1

2

1

AluSc

4

7

7

AluSc8

3

6

6

AluSg

13

25

21

AluSg4

2

4

4

AluSp

2

4

4

AluSq

4

8

8

AluSq2

1

2

2

AluSx

36

64

61

AluSx1

1

2

2

AluSx3

2

4

4

AluSx4

3

5

4

AluSz

5

10

10

AluSz6

2

4

4

AluY

161

311

310

AluYa5

248

475

474

AluYa8

6

12

12

AluYb8

146

280

280

AluYb9

22

43

43

AluYc

9

18

18

AluYd8

5

9

9

AluYe5

24

48

48

AluYg6

14

28

28

AluYh7

3

5

5

AluYi6

2

4

4

AluYj4

2

4

4

AluYk11

3

6

6

AluYk12

3

5

5

AluYk2

21

40

39

AluYk3

4

8

8

FLAM C

1

2

2

FRAM

1

2

2

Total

783

1 501

1 488

Click to show table with L1 counts by name.
Count of L1 elements by name

Name

Unique

Total
(lax)

Total
(strict)

L1HS

54

105

103

L1M2

2

4

4

L1M2a

1

2

1

L1M3

1

2

2

L1M3b

1

2

2

L1M4

3

6

5

L1M5

1

2

2

L1MA1

1

2

2

L1MA5

1

2

2

L1MA8

1

2

2

L1MB2

1

2

2

L1MB8

1

2

2

L1MC

2

4

4

L1MC3

1

2

1

L1MC4

2

4

4

L1MC5

1

2

2

L1MD3

1

1

1

L1P1

5

9

8

L1P2

3

4

4

L1P3

6

12

11

L1P3b

1

2

2

L1PA10

1

2

2

L1PA16

2

4

4

L1PA2

4

8

8

L1PA7

2

4

4

L1PB

2

4

4

L1PB1

1

2

2

L1PBa1

1

2

2

Total

103

199

192

2.1.2 Class II TEs on gene sequences

Click to show table with 1093 rows.

Position

Length

Type

Gene

Annotation

Occurrences

CP068255.2:1 234 402

119

SINE (Alu)

SLC25A6

Intron

2

CP068255.2:21 930 360

320

SINE (Alu)

PTCHD1-AS

Intron

1

CP068255.2:22 237 816

315

SINE (Alu)

PTCHD1-AS

Intron

2

CP068255.2:24 293 369

129

Retroposon (SVA)

POLA1

Intron

2

CP068255.2:30 855 306

302

SINE (Alu)

DMD

Intron

1

CP068255.2:31 581 182

315

SINE (Alu)

DMD

Intron

2

CP068255.2:32 882 843

308

SINE (Alu)

DMD

Intron

2

CP068255.2:83 656 504

86

LINE (L1)

SATL1

Intron

2

CP068255.2:83 683 173

329

SINE (Alu)

ZNF711

Intron

2

CP068255.2:84 713 986

311

SINE (Alu)

DACH2

Intron

2

CP068255.2:90 623 038

135

SINE (Alu)

PCDH11X

Intron

2

CP068255.2:100 344 903

51

LINE (L1)

ZMAT1

Intron

2

CP068255.2:120 735 396

327

SINE (Alu)

LOC101928359

Intron

2

CP068255.2:145 121 988

788

LINE (L1)

LOC101928832

Intron

2

CP068255.2:247 895

164

SINE (Alu)

LOC102724521

Intron

2

CP068255.2:295 108

164

SINE (Alu)

LOC102724521

Intron

2

CP068256.2:7 583 739

316

SINE (Alu)

LOC128966699

Promoter

2

CP068256.2:18 235 398

356

SINE (Alu)

SLC25A18

Intron

2

CP068256.2:18 700 162

327

SINE (Alu)

LINC01634

Promoter

2

CP068256.2:20 929 750

292

SINE (Alu)

MED15

Intron

2

CP068256.2:24 409 917

309

SINE (Alu)

GSTT4

Intron

2

CP068256.2:24 455 919

189

SINE (Alu)

GSTTP2

Intron

1

CP068256.2:24 456 566

301

SINE (Alu)

GSTTP2

Intron

1

CP068256.2:25 446 692

336

SINE (Alu)

KIAA1671

Intron

1

CP068256.2:25 461 789

294

SINE (Alu)

KIAA1671

Intron

2

CP068256.2:25 532 879

98

SINE (Alu)

KIAA1671

Intron

2

CP068256.2:27 234 737

2 593

Retroposon (SVA)

MIATNB

Intron

2

CP068256.2:28 841 478

330

SINE (Alu)

TTC28

Intron

2

CP068256.2:29 242 941

314

SINE (Alu)

CCDC117

Intron

2

CP068256.2:32 056 349

295

Retroposon (SVA)

SFI1

Intron

2

CP068256.2:32 056 357

158

Retroposon (SVA)

SFI1

Intron

1

CP068256.2:32 276 540

316

SINE (Alu)

DEPDC5

Intron

2

CP068256.2:34 820 706

63

SINE (Alu)

LOC105373012

Promoter

2

CP068256.2:35 243 538

321

SINE (Alu)

LINC02885

Intron

2

CP068256.2:36 775 979

321

SINE (Alu)

MYH9

Intron

2

CP068256.2:39 828 297

62

LTR (ERV1)

SYNGR1

Intron

2

CP068256.2:41 793 756

312

SINE (Alu)

ZC3H7B

Intron

2

CP068256.2:43 299 732

314

SINE (Alu)

ARFGAP3

Intron

1

CP068256.2:43 634 478

325

SINE (Alu)

TSPO

Intron

2

CP068256.2:44 411 840

1 144

LINE (L1)

PNPLA3

Intron

2

CP068257.2:12 279 099

187

Retroposon (SVA)

LOC110091776

Promoter

2

CP068257.2:12 625 686

326

SINE (Alu)

ABCC13

Intron

2

CP068257.2:13 335 804

328

SINE (Alu)

NRIP1

Intron

2

CP068257.2:13 911 959

389

LINE (L1)

LOC105369302

Intron

2

CP068257.2:15 595 054

1 306

LINE (L1)

LOC107985511

Intron

2

CP068257.2:16 504 323

3 401

LINE (L1)

CHODL

Intron

2

CP068257.2:20 621 840

6 639

LINE (L1)

LOC107985508

Intron

2

CP068257.2:21 725 996

321

SINE (Alu)

D21S2088E

Intron

2

CP068257.2:25 547 133

321

SINE (Alu)

LOC102724355

Intron

2

CP068257.2:27 375 046

47

Retroposon (SVA)

RWDD2B

Intron

1

CP068257.2:34 874 715

321

SINE (Alu)

CLDN14-AS1

Intron

2

CP068257.2:38 467 340

326

SINE (Alu)

DSCAM

Intron

2

CP068257.2:38 974 145

118

SINE (Alu)

DSCAM

Intron

2

CP068257.2:41 308 511

52

LTR (ERV1)

ERVH48-1

Intron

2

CP068258.2:3 292 707

309

SINE (Alu)

DNAAF9

Intron

2

CP068258.2:8 504 792

330

SINE (Alu)

PLCB1

Intron

2

CP068258.2:15 176 135

290

SINE (Alu)

MACROD2

Intron

2

CP068258.2:16 549 972

324

LINE (L1)

KIF16B

Intron

2

CP068258.2:21 237 843

1 434

LINE (L1)

KIZ

Intron

2

CP068258.2:25 627 226

445

Retroposon (SVA)

NINL

Intron

2

CP068258.2:36 934 692

180

SINE (Alu)

PROCR

Intron

2

CP068258.2:37 925 585

291

SINE (Alu)

EPB41L1

Intron

2

CP068258.2:38 114 785

94

SINE (Alu)

DLGAP4

Intron

2

CP068258.2:62 091 491

125

SINE (Alu)

MIR646HG

Intron

2

CP068258.2:63 187 711

320

SINE (Alu)

CDH4

Intron

2

CP068259.2:1 997 543

311

SINE (Alu)

LOC107985278

Intron

2

CP068259.2:2 535 989

124

SINE (Alu)

GNG7

Intron

2

CP068259.2:3 262 720

317

SINE (Alu)

CELF5

Intron

2

CP068259.2:6 141 006

264

SINE (Alu)

ACSBG2

Intron

2

CP068259.2:6 151 665

290

SINE (Alu)

ACSBG2

Intron

2

CP068259.2:6 913 159

321

SINE (Alu)

ADGRE1

Intron

1

CP068259.2:6 976 775

329

SINE (Alu)

ADGRE4P

Intron

2

CP068259.2:13 829 928

123

Retroposon (SVA)

LOC105372284

Intron

2

CP068259.2:17 856 397

166

SINE (Alu)

MAP1S

Intron

1

CP068259.2:18 265 756

319

SINE (Alu)

MAST3

Intron

1

CP068259.2:20 352 161

49

Retroposon (SVA)

LOC124908076

Intron

1

CP068259.2:21 703 198

266

SINE (Alu)

LOC124904670

Intron

2

CP068259.2:21 715 982

318

SINE (Alu)

LOC101929007

Intron

2

CP068259.2:21 716 142

146

SINE (Alu)

LOC101929007

Intron

1

CP068259.2:22 003 892

95

Retroposon (SVA)

LOC105372324

Intron

1

CP068259.2:22 772 645

314

SINE (Alu)

ZNF492

Promoter

2

CP068259.2:22 775 504

308

SINE (Alu)

ZNF492

Intron

1

CP068259.2:23 273 105

316

SINE (Alu)

ZNF730

Intron

2

CP068259.2:23 988 201

50

Retroposon (SVA)

RPSA2

Intron

2

CP068259.2:31 895 943

963

LTR (ERVK)

VSTM2B-DT

Intron

2

CP068259.2:32 477 728

304

SINE (Alu)

URI1

Intron

2

CP068259.2:38 771 243

2 483

Retroposon (SVA)

ZNF146

Intron

2

CP068259.2:41 072 000

115

SINE (Alu)

SPINT2

Intron

1

CP068259.2:44 182 655

293

SINE (Alu)

B9D2

Intron

2

CP068259.2:46 477 902

317

SINE (Alu)

PLAUR

Intron

2

CP068259.2:47 849 106

92

SINE (Alu)

RELB

Intron

2

CP068259.2:54 049 533

135

SINE (Alu)

LOC105372442

Intron

2

CP068259.2:54 361 759

312

SINE (Alu)

LINC01872

Intron

2

CP068259.2:54 446 027

327

SINE (Alu)

ETFB

Intron

2

CP068259.2:55 665 437

134

SINE (Alu)

ZNF701

Intron

2

CP068259.2:58 069 652

330

SINE (Alu)

NLRP2

Intron

2

CP068259.2:58 093 129

49

Retroposon (SVA)

NLRP2

Intron

1

CP068259.2:58 093 134

49

Retroposon (SVA)

NLRP2

Intron

1

CP068259.2:59 549 110

314

SINE (Alu)

ZNF667

Intron

2

CP068259.2:59 606 629

325

SINE (Alu)

ZNF471

Intron

2

CP068259.2:61 203 201

330

SINE (Alu)

ZSCAN18

Intron

2

CP068259.2:61 501 622

164

Retroposon (SVA)

ZNF584

Intron

1

CP068259.2:61 501 716

163

Retroposon (SVA)

ZNF584

Intron

1

CP068259.2:430 825

132

SINE (Alu)

CIMAP1D

Intron

2

CP068259.2:646 264

72

SINE (Alu)

PRSS57

Intron

2

CP068259.2:773 677

308

SINE (Alu)

PLPPR3

Intron

2

CP068260.2:3 032 121

146

SINE (Alu)

EMILIN2

Intron

2

CP068260.2:8 797 339

111

SINE (Alu)

RAB12

Intron

2

CP068260.2:9 388 660

334

SINE (Alu)

ANKRD12

Intron

2

CP068260.2:11 073 229

317

SINE (Alu)

PIEZO2

Intron

1

CP068260.2:11 651 340

412

SINE (Alu)

LINC01255

Promoter

1

CP068260.2:11 651 340

412

SINE (Alu)

LINC01255

Intron

1

CP068260.2:27 152 079

317

SINE (Alu)

CHST9

Intron

2

CP068260.2:35 273 621

317

SINE (Alu)

MAPRE2

Intron

2

CP068260.2:45 956 220

79

SINE (Alu)

LOC105372093

Intron

2

CP068260.2:49 775 450

48

Retroposon (SVA)

LIPG

Intron

1

CP068260.2:50 011 675

175

Retroposon (SVA)

ACAA2

Intron

2

CP068260.2:50 011 874

176

Retroposon (SVA)

ACAA2

Intron

1

CP068260.2:52 608 255

321

SINE (Alu)

DCC

Intron

2

CP068260.2:53 663 279

320

SINE (Alu)

DCC

Intron

2

CP068260.2:55 681 933

319

SINE (Alu)

MIR4529

Promoter

2

CP068260.2:55 681 933

319

SINE (Alu)

TCF4-AS1

Intron

2

CP068260.2:56 003 042

326

SINE (Alu)

LOC105372130

Intron

2

CP068260.2:56 891 790

330

SINE (Alu)

WDR7

Intron

2

CP068260.2:57 843 094

101

LTR (ERV1)

ATP8B1-AS1

Intron

1

CP068260.2:57 843 462

203

LTR (ERV1)

ATP8B1-AS1

Intron

1

CP068260.2:57 914 128

143

SINE (Alu)

ATP8B1

Intron

2

CP068260.2:62 249 430

314

SINE (Alu)

PIGN

Intron

2

CP068260.2:66 072 639

337

SINE (Alu)

CDH7

Intron

2

CP068260.2:69 709 407

313

SINE (Alu)

DOK6

Intron

2

CP068260.2:70 644 924

312

SINE (Alu)

RPS2P6

Promoter

2

CP068260.2:70 644 924

312

SINE (Alu)

LOC124908034

Intron

2

CP068260.2:71 698 063

52

LINE (L1)

LOC107985179

Intron

2

CP068260.2:74 496 908

63

LINE (L2)

CYB5A

Intron

1

CP068261.2:2 178 843

134

SINE (Alu)

SMG6

Intron

2

CP068261.2:3 433 087

132

SINE (Alu)

TRPV3

Intron

2

CP068261.2:10 207 978

330

SINE (Alu)

LOC107985004

Intron

1

CP068261.2:13 440 691

297

SINE (Alu)

HS3ST3A1

Intron

1

CP068261.2:16 232 917

317

SINE (Alu)

PIGL

Intron

2

CP068261.2:19 987 007

2 668

Retroposon (SVA)

SPECC1

Intron

1

CP068261.2:20 934 063

96

Retroposon (SVA)

LOC124900389

Intron

1

CP068261.2:38 008 694

192

SINE (Alu)

AATF

Intron

2

CP068261.2:42 963 138

105

SINE (Alu)

DHX58

Intron

2

CP068261.2:45 034 218

255

Retroposon (SVA)

ASB16-AS1

Intron

2

CP068261.2:49 291 096

323

SINE (Alu)

SKAP1

Intron

2

CP068261.2:49 989 170

224

Retroposon (SVA)

B4GALNT2

Intron

2

CP068261.2:52 840 126

314

SINE (Alu)

CA10

Intron

2

CP068261.2:59 594 282

71

LINE (L1)

RAD51C

Intron

1

CP068261.2:61 447 465

325

SINE (Alu)

LINC01999

Intron

2

CP068261.2:69 968 391

311

SINE (Alu)

ABCA6

Intron

2

CP068261.2:74 299 029

163

SINE (Alu)

SDK2

Intron

1

CP068261.2:74 299 196

166

SINE (Alu)

SDK2

Intron

1

CP068261.2:75 514 650

307

SINE (Alu)

CD300E

Promoter

2

CP068261.2:75 514 650

307

SINE (Alu)

LOC101928343

Intron

2

CP068261.2:75 935 935

315

SINE (Alu)

KCTD2

Intron

2

CP068261.2:76 696 269

95

SINE (Alu)

UNK

Intron

2

CP068261.2:78 886 239

313

SINE (Alu)

TNRC6C

Intron

2

CP068261.2:79 403 508

181

SINE (Alu)

DNAH17

Intron

2

CP068261.2:82 055 352

326

SINE (Alu)

AATK

Intron

2

CP068261.2:82 527 912

322

SINE (Alu)

NPLOC4

Promoter

2

CP068261.2:82 527 912

322

SINE (Alu)

NPLOC4

Intron

2

CP068261.2:83 676 846

1 409

Retroposon (SVA)

TBCD

Intron

2

CP068261.2:455 384

96

Retroposon (SVA)

VPS53

Intron

2

CP068261.2:718 177

313

SINE (Alu)

NXN

Intron

2

CP068261.2:799 798

134

SINE (Alu)

NXN

Intron

2

CP068262.2:5 324 686

317

SINE (Alu)

RBFOX1

Intron

2

CP068262.2:6 773 894

1 405

LINE (L1)

RBFOX1

Intron

1

CP068262.2:11 372 328

118

Retroposon (SVA)

LOC105371082

Intron

2

CP068262.2:11 372 367

294

Retroposon (SVA)

LOC105371082

Intron

2

CP068262.2:15 116 749

85

SINE (Alu)

PDXDC1

Intron

2

CP068262.2:18 253 306

134

SINE (Alu)

LOC105376751

Intron

2

CP068262.2:19 149 959

345

SINE (Alu)

SYT17

Intron

2

CP068262.2:20 697 234

328

SINE (Alu)

ACSM3

Intron

2

CP068262.2:21 163 027

321

SINE (Alu)

LOC105371123

Intron

2

CP068262.2:22 366 704

185

SINE (Alu)

NPIPB4

Intron

1

CP068262.2:22 425 396

310

SINE (Alu)

LOC105371126

Intron

2

CP068262.2:24 129 334

325

SINE (Alu)

PRKCB

Intron

2

CP068262.2:25 129 781

63

LINE (L2)

SLC5A11

Intron

1

CP068262.2:28 953 796

65

SINE (Alu)

LOC124903790

Promoter

2

CP068262.2:34 910 910

138

SINE (Alu)

TUBB8P11

Intron

1

CP068262.2:63 015 018

315

SINE (Alu)

RSPRY1

Intron

2

CP068262.2:64 052 598

317

SINE (Alu)

CFAP263

Intron

1

CP068262.2:64 555 275

134

SINE (Alu)

LOC107984867

Intron

2

CP068262.2:64 559 334

55

SINE (Alu)

LOC107984867

Intron

2

CP068262.2:67 801 060

329

SINE (Alu)

CDH8

Intron

2

CP068262.2:75 622 940

53

SINE (Alu)

WWP2

Intron

2

CP068262.2:81 108 232

76

LINE (L1)

ZNRF1

Intron

2

CP068262.2:81 211 804

307

SINE (Alu)

ZFP1

Intron

2

CP068262.2:83 862 434

133

SINE (Alu)

VAT1L

Intron

2

CP068262.2:84 715 226

326

SINE (Alu)

WWOX

Intron

2

CP068262.2:88 943 277

312

SINE (Alu)

CDH13

Intron

2

CP068262.2:94 530 929

337

SINE (Alu)

ZFPM1

Intron

1

CP068262.2:95 928 542

311

SINE (Alu)

SPIRE2

Intron

1

CP068262.2:480 325

311

SINE (Alu)

RAB11FIP3

Intron

2

CP068263.2:21 696 325

308

SINE (Alu)

LOC107984787

Intron

2

CP068263.2:23 495 786

56

LTR (ERV1)

ATP10A

Intron

2

CP068263.2:23 497 425

72

LTR (ERV1)

ATP10A

Intron

2

CP068263.2:23 498 708

52

LTR (ERV1)

ATP10A

Intron

1

CP068263.2:23 499 008

52

LTR (ERV1)

ATP10A

Intron

1

CP068263.2:25 263 076

324

SINE (Alu)

GABRG3

Intron

2

CP068263.2:25 672 331

121

SINE (Alu)

OCA2

Intron

2

CP068263.2:25 673 162

393

LINE (L1)

OCA2

Intron

2

CP068263.2:31 536 137

6 041

LINE (L1)

RYR3

Intron

2

CP068263.2:32 986 718

317

SINE (Alu)

DPH6

Intron

2

CP068263.2:33 461 727

125

Retroposon (SVA)

DPH6-DT

Intron

2

CP068263.2:33 609 416

309

SINE (Alu)

DPH6-DT

Intron

2

CP068263.2:35 220 952

666

LINE (L1)

LOC105370772

Intron

1

CP068263.2:36 780 040

352

SINE (Alu)

LOC105370777

Intron

2

CP068263.2:38 614 143

315

SINE (Alu)

DNAJC17

Promoter

2

CP068263.2:38 614 143

315

SINE (Alu)

ZFYVE19

Intron

2

CP068263.2:39 236 166

305

SINE (Alu)

RTF1

Intron

2

CP068263.2:40 270 159

75

SINE (Alu)

ZNF106

Intron

1

CP068263.2:43 086 082

143

SINE (Alu)

SLC28A2-AS1

Intron

2

CP068263.2:43 583 928

335

SINE (Alu)

LOC105370802

Intron

2

CP068263.2:43 641 520

324

SINE (Alu)

LOC105370802

Intron

2

CP068263.2:45 153 207

326

SINE (Alu)

SEMA6D

Intron

2

CP068263.2:47 125 591

311

SINE (Alu)

GALK2

Intron

2

CP068263.2:50 041 588

331

SINE (Alu)

LOC105370820

Intron

2

CP068263.2:53 913 589

228

Retroposon (SVA)

LOC124903498

Intron

1

CP068263.2:53 913 807

50

Retroposon (SVA)

LOC124903498

Intron

1

CP068263.2:55 792 313

104

SINE (Alu)

ALDH1A2

Intron

2

CP068263.2:56 106 612

319

SINE (Alu)

LOC124907518

Intron

2

CP068263.2:58 168 194

306

SINE (Alu)

ANXA2

Intron

2

CP068263.2:58 727 456

317

SINE (Alu)

RORA

Intron

2

CP068263.2:64 043 253

324

SINE (Alu)

MEGF11

Intron

2

CP068263.2:64 197 247

322

SINE (Alu)

TIPIN

Intron

2

CP068263.2:64 381 413

200

SINE (Alu)

LCTL

Intron

2

CP068263.2:64 824 384

330

SINE (Alu)

SMAD3-DT

Intron

2

CP068263.2:65 174 494

317

SINE (Alu)

IQCH

Intron

2

CP068263.2:71 508 181

321

SINE (Alu)

CD276

Intron

2

CP068263.2:73 374 856

144

Retroposon (SVA)

PTPN9

Intron

2

CP068263.2:76 507 733

317

SINE (Alu)

CHRNB4

Intron

2

CP068263.2:77 366 877

313

SINE (Alu)

LOC105370919

Promoter

2

CP068263.2:85 217 623

159

SINE (Alu)

LOC102724465

Intron

2

CP068263.2:92 039 791

305

SINE (Alu)

MCTP2

Intron

2

CP068263.2:93 349 076

291

SINE (Alu)

LOC105370995

Intron

2

CP068263.2:95 035 913

127

LINE (L1)

LINC02253

Intron

1

CP068263.2:95 045 999

328

SINE (Alu)

LINC02253

Intron

2

CP068263.2:96 121 828

565

LINE (L1)

LINC02351

Intron

2

CP068263.2:98 667 707

310

SINE (Alu)

ALDH1A3

Intron

2

CP068264.2:13 913 770

329

SINE (Alu)

OR11H2

Promoter

2

CP068264.2:14 703 899

172

Retroposon (SVA)

RNASE10

Intron

1

CP068264.2:15 771 109

327

SINE (Alu)

OR10G3

Intron

2

CP068264.2:18 051 022

79

LTR (ERV1)

LINC00596

Intron

2

CP068264.2:18 410 919

164

SINE (Alu)

CHMP4A

Intron

2

CP068264.2:24 879 419

6 122

LINE (L1)

SCFD1

Intron

1

CP068264.2:29 128 780

87

SINE (Alu)

SRP54-AS1

Intron

2

CP068264.2:29 131 238

313

SINE (Alu)

SRP54-AS1

Intron

2

CP068264.2:32 463 591

325

SINE (Alu)

LOC112268136

Intron

2

CP068264.2:45 642 552

6 031

LINE (L1)

SETP2

Promoter

1

CP068264.2:45 642 552

6 031

LINE (L1)

FRMD6

Intron

1

CP068264.2:53 559 568

132

LINE (L1)

DAAM1

Intron

2

CP068264.2:55 990 365

336

SINE (Alu)

SNAPC1

Intron

2

CP068264.2:65 176 814

327

SINE (Alu)

PCNX1

Intron

2

CP068264.2:65 218 922

331

SINE (Alu)

PCNX1

Intron

2

CP068264.2:67 743 059

1 408

LTR (ERV1)

ACOT1

Intron

1

CP068264.2:67 743 506

730

LTR (ERV1)

ACOT1

Intron

1

CP068264.2:67 764 612

311

SINE (Alu)

HEATR4

Intron

2

CP068264.2:67 927 366

317

SINE (Alu)

MIDEAS

Intron

2

CP068264.2:87 596 458

314

SINE (Alu)

UNC79

Intron

2

CP068264.2:94 611 756

326

SINE (Alu)

WDR25

Intron

2

CP068265.2:5 252 040

71

LINE (L1)

LOC124907012

Intron

2

CP068265.2:13 715 682

196

SINE (Alu)

FAM230C

Intron

2

CP068265.2:19 029 113

304

SINE (Alu)

ZMYM5

Intron

2

CP068265.2:20 642 557

145

Retroposon (SVA)

ZDHHC20

Intron

2

CP068265.2:20 642 723

76

Retroposon (SVA)

ZDHHC20

Intron

2

CP068265.2:28 214 242

66

LTR (ERV1)

MTUS2

Intron

2

CP068265.2:28 603 953

324

SINE (Alu)

MTUS2

Intron

2

CP068265.2:29 823 844

327

SINE (Alu)

HMGB1

Intron

2

CP068265.2:33 759 344

76

Retroposon (SVA)

LINC02343

Intron

1

CP068265.2:33 759 648

275

Retroposon (SVA)

LINC02343

Intron

1

CP068265.2:38 095 120

313

SINE (Alu)

FREM2

Intron

2

CP068265.2:40 868 719

2 724

Retroposon (SVA)

VWA8

Intron

1

CP068265.2:41 100 875

77

Retroposon (SVA)

VWA8

Intron

2

CP068265.2:42 185 736

1 644

Retroposon (SVA)

EPSTI1

Intron

2

CP068265.2:44 915 232

314

SINE (Alu)

LINC01055

Intron

2

CP068265.2:45 366 990

318

SINE (Alu)

LCP1

Intron

2

CP068265.2:45 778 730

322

SINE (Alu)

LRCH1

Intron

2

CP068265.2:47 438 605

306

SINE (Alu)

LOC105370198

Intron

2

CP068265.2:57 403 474

309

SINE (Alu)

LINC02338

Intron

2

CP068265.2:77 302 799

315

SINE (Alu)

OBI1-AS1

Intron

2

CP068265.2:78 735 172

315

SINE (Alu)

NDFIP2

Intron

2

CP068265.2:89 698 651

101

LTR (ERV1)

LINC01049

Intron

2

CP068265.2:91 376 118

321

SINE (Alu)

GPC5

Intron

2

CP068265.2:92 657 341

318

SINE (Alu)

GPC6

Intron

2

CP068265.2:98 181 350

134

SINE (Alu)

DOCK9

Intron

2

CP068265.2:100 191 900

100

LTR (ERV1)

NALCN-AS1

Intron

2

CP068265.2:106 498 472

321

SINE (Alu)

NALF1

Intron

2

CP068265.2:107 842 850

61

LINE (L1)

MYO16

Intron

2

CP068265.2:109 388 985

314

SINE (Alu)

COL4A1

Intron

2

CP068265.2:109 862 683

128

LTR (ERV1)

NAXD

Intron

2

CP068265.2:110 189 655

246

SINE (Alu)

LOC105370364

Intron

2

CP068265.2:112 115 809

312

SINE (Alu)

ATP11A

Intron

2

CP068266.2:1 976 788

318

SINE (Alu)

CACNA1C

Intron

2

CP068266.2:3 101 639

127

Retroposon (SVA)

TSPAN9

Intron

2

CP068266.2:4 668 545

309

SINE (Alu)

NDUFA9

Intron

2

CP068266.2:4 741 668

215

SINE (Alu)

GALNT8

Intron

2

CP068266.2:5 668 028

308

SINE (Alu)

ANO2

Intron

2

CP068266.2:6 807 792

255

SINE (Alu)

CD4

Intron

1

CP068266.2:7 213 258

93

Retroposon (SVA)

PEX5

Intron

2

CP068266.2:7 830 662

336

SINE (Alu)

SLC2A14

Intron

2

CP068266.2:8 456 751

319

SINE (Alu)

CLEC6A

Intron

2

CP068266.2:10 533 754

173

LTR (ERV1)

STYK1

Intron

2

CP068266.2:10 960 227

331

SINE (Alu)

PRH1-PRR4

Intron

1

CP068266.2:10 975 580

312

SINE (Alu)

PRH1-PRR4

Intron

1

CP068266.2:12 283 010

97

Retroposon (SVA)

BORCS5

Intron

2

CP068266.2:12 325 999

310

SINE (Alu)

BORCS5

Intron

1

CP068266.2:12 654 312

1 782

LINE (L1)

APOLD1

Intron

2

CP068266.2:14 829 038

325

SINE (Alu)

ARHGDIB

Promoter

2

CP068266.2:14 829 038

325

SINE (Alu)

ARHGDIB

Intron

2

CP068266.2:21 811 737

333

SINE (Alu)

ABCC9

Intron

2

CP068266.2:24 707 017

309

SINE (Alu)

BCAT1

Intron

2

CP068266.2:26 657 326

587

Retroposon (SVA)

ITPR2

Intron

2

CP068266.2:26 657 354

158

Retroposon (SVA)

ITPR2

Intron

1

CP068266.2:26 657 772

149

Retroposon (SVA)

ITPR2

Intron

2

CP068266.2:27 239 765

329

SINE (Alu)

BMAL2

Intron

2

CP068266.2:27 583 597

314

SINE (Alu)

MRPS35

Intron

2

CP068266.2:29 543 251

313

SINE (Alu)

TMTC1

Intron

2

CP068266.2:40 231 437

326

SINE (Alu)

LRRK2

Intron

2

CP068266.2:41 239 964

345

LINE (L1)

PDZRN4

Intron

2

CP068266.2:42 186 236

97

Retroposon (SVA)

YAF2

Intron

2

CP068266.2:44 984 372

311

SINE (Alu)

DBX2

Intron

2

CP068266.2:51 442 071

342

SINE (Alu)

SLC4A8

Intron

2

CP068266.2:53 648 538

317

SINE (Alu)

ATP5MC2

Promoter

1

CP068266.2:62 002 307

319

SINE (Alu)

TAFA2

Intron

2

CP068266.2:62 465 027

321

SINE (Alu)

MON2

Intron

2

CP068266.2:64 720 062

176

SINE (Alu)

GNS

Intron

2

CP068266.2:66 492 045

313

SINE (Alu)

GRIP1

Intron

1

CP068266.2:66 597 279

324

SINE (Alu)

GRIP1

Intron

2

CP068266.2:77 981 522

327

SINE (Alu)

NAV3

Intron

2

CP068266.2:80 900 281

323

SINE (Alu)

LIN7A

Intron

2

CP068266.2:94 256 702

321

SINE (Alu)

PLXNC1

Intron

2

CP068266.2:96 285 798

317

SINE (Alu)

CDK17

Intron

2

CP068266.2:101 881 504

99

SINE (Alu)

DRAM1

Intron

2

CP068266.2:105 341 485

318

SINE (Alu)

LOC105369957

Intron

2

CP068266.2:106 691 957

312

SINE (Alu)

RFX4

Intron

2

CP068266.2:112 316 213

349

SINE (Alu)

HECTD4

Intron

2

CP068266.2:113 848 347

147

Retroposon (SVA)

RBM19

Intron

1

CP068266.2:115 271 606

312

SINE (Alu)

LOC124903082

Intron

2

CP068266.2:117 736 378

3 762

LINE (L1)

KSR2

Intron

2

CP068266.2:121 878 118

194

SINE (Alu)

HPD

Intron

2

CP068266.2:121 990 187

461

Retroposon (SVA)

CFAP251

Intron

2

CP068266.2:122 233 522

78

SINE (Alu)

VPS33A

Intron

2

CP068266.2:122 704 283

49

Retroposon (SVA)

LOC124906985

Intron

1

CP068266.2:124 855 294

309

SINE (Alu)

SCARB1

Intron

2

CP068266.2:126 429 324

314

SINE (Alu)

LINC02825

Intron

2

CP068266.2:126 723 342

316

SINE (Alu)

LINC02824

Intron

2

CP068266.2:129 608 033

326

SINE (Alu)

TMEM132D

Intron

2

CP068266.2:420 942

2 487

Retroposon (SVA)

CCDC77

Intron

2

CP068267.2:5 010 997

301

SINE (Alu)

MMP26

Intron

2

CP068267.2:7 649 824

320

SINE (Alu)

LOC105376535

Promoter

2

CP068267.2:7 649 824

320

SINE (Alu)

PPFIBP2

Intron

2

CP068267.2:8 949 899

317

SINE (Alu)

DENND2B

Intron

2

CP068267.2:9 857 725

318

SINE (Alu)

SBF2-AS1

Intron

2

CP068267.2:14 573 741

324

SINE (Alu)

COPB1

Intron

2

CP068267.2:17 004 803

253

Retroposon (SVA)

PLEKHA7

Intron

2

CP068267.2:17 004 834

77

Retroposon (SVA)

PLEKHA7

Intron

2

CP068267.2:19 481 274

324

SINE (Alu)

NAV2

Intron

2

CP068267.2:22 361 771

123

LINE (L1)

ANO5

Intron

2

CP068267.2:24 902 348

319

SINE (Alu)

LUZP2

Intron

2

CP068267.2:25 682 675

345

SINE (Alu)

LINC02699

Intron

2

CP068267.2:26 412 603

302

SINE (Alu)

ANO3

Intron

2

CP068267.2:26 799 043

98

SINE (Alu)

ANO3

Intron

2

CP068267.2:27 776 457

330

LTR (ERV1)

BDNF-AS

Intron

2

CP068267.2:31 266 980

315

SINE (Alu)

DCDC1

Intron

2

CP068267.2:33 652 002

320

SINE (Alu)

KIAA1549L

Intron

2

CP068267.2:34 364 862

325

SINE (Alu)

ABTB2

Intron

1

CP068267.2:34 364 966

324

SINE (Alu)

ABTB2

Intron

1

CP068267.2:36 680 096

6 064

LINE (L1)

RAG1

Intron

2

CP068267.2:42 181 175

327

SINE (Alu)

LINC02745

Intron

2

CP068267.2:47 253 972

175

Retroposon (SVA)

CSTPP1

Intron

2

CP068267.2:49 811 499

302

SINE (Alu)

GRM5P1

Intron

2

CP068267.2:60 485 034

79

LINE (L1)

MS4A13

Intron

2

CP068267.2:63 882 701

259

LINE (L1)

MARK2

Intron

2

CP068267.2:74 199 847

264

SINE (Alu)

P4HA3

Intron

1

CP068267.2:75 339 543

77

Retroposon (SVA)

RPS3

Intron

2

CP068267.2:77 028 418

177

Retroposon (SVA)

CAPN5

Intron

2

CP068267.2:78 812 830

73

Retroposon (SVA)

TENM4

Intron

1

CP068267.2:78 812 989

76

Retroposon (SVA)

TENM4

Intron

1

CP068267.2:79 061 406

56

LTR (ERVL)

TENM4

Intron

2

CP068267.2:86 426 805

320

SINE (Alu)

ME3

Intron

2

CP068267.2:89 394 639

338

SINE (Alu)

NOX4

Intron

2

CP068267.2:89 743 826

56

LINE (L1)

LOC642414

Intron

2

CP068267.2:93 292 452

317

SINE (Alu)

DEUP1

Intron

2

CP068267.2:101 050 609

317

SINE (Alu)

PGR

Intron

2

CP068267.2:101 555 768

328

SINE (Alu)

TRPC6

Intron

2

CP068267.2:102 644 466

317

SINE (Alu)

MMP20-AS1

Intron

2

CP068267.2:104 919 972

320

SINE (Alu)

CASP4LP

Intron

2

CP068267.2:106 732 181

290

SINE (Alu)

GUCY1A2

Intron

2

CP068267.2:112 224 222

1 288

LINE (L1)

BCO2

Intron

2

CP068267.2:114 826 733

315

SINE (Alu)

LOC105369506

Intron

2

CP068267.2:116 334 364

123

SINE (Alu)

LOC124902834

Promoter

2

CP068267.2:118 715 549

133

SINE (Alu)

LOC105369519

Intron

2

CP068267.2:125 617 715

2 805

Retroposon (SVA)

STT3A-AS1

Intron

2

CP068267.2:127 104 382

326

SINE (Alu)

LOC101929473

Intron

2

CP068267.2:130 127 234

449

Retroposon (SVA)

APLP2

Intron

2

CP068267.2:473 330

320

SINE (Alu)

ANO9

Intron

2

CP068268.2:1 248 623

326

SINE (Alu)

ADARB2

Intron

2

CP068268.2:3 530 702

314

SINE (Alu)

LOC105376360

Intron

2

CP068268.2:4 863 989

71

LINE (L1)

AKR1E2

Intron

2

CP068268.2:9 873 493

325

SINE (Alu)

LINC02663

Intron

2

CP068268.2:10 462 177

323

SINE (Alu)

CELF2-DT

Intron

2

CP068268.2:10 778 281

169

SINE (Alu)

CELF2

Intron

2

CP068268.2:14 722 879

64

LINE (L1)

FAM107B

Intron

2

CP068268.2:19 127 412

333

SINE (Alu)

MALRD1

Intron

1

CP068268.2:19 280 911

315

SINE (Alu)

MALRD1

Intron

2

CP068268.2:19 517 007

295

SINE (Alu)

MALRD1

Intron

2

CP068268.2:24 675 533

144

Retroposon (SVA)

ARHGAP21

Intron

2

CP068268.2:26 033 549

330

SINE (Alu)

MYO3A

Intron

2

CP068268.2:26 090 723

316

SINE (Alu)

MYO3A

Intron

2

CP068268.2:27 326 361

448

Retroposon (SVA)

ODAD2P1

Intron

2

CP068268.2:29 454 890

561

LINE (L1)

SVIL-AS1

Intron

2

CP068268.2:30 638 185

125

SINE (Alu)

LYZL2

Intron

2

CP068268.2:37 665 828

301

SINE (Alu)

LOC102724533

Intron

2

CP068268.2:38 027 057

157

SINE (Alu)

ZNF25-DT

Intron

2

CP068268.2:43 632 105

324

SINE (Alu)

LOC105378269

Promoter

2

CP068268.2:47 533 855

321

SINE (Alu)

SHLD2P1

Intron

2

CP068268.2:49 919 156

314

SINE (Alu)

VSTM4

Intron

2

CP068268.2:53 574 545

70

SINE (Alu)

LOC105378305

Intron

2

CP068268.2:55 591 289

514

LINE (L1)

PCDH15

Intron

2

CP068268.2:55 788 354

125

LINE (L1)

PCDH15

Intron

1

CP068268.2:62 840 680

169

SINE (Alu)

ARID5B

Intron

2

CP068268.2:67 152 644

246

SINE (Alu)

CTNNA3

Intron

2

CP068268.2:67 440 301

328

SINE (Alu)

CTNNA3

Intron

2

CP068268.2:70 106 720

314

SINE (Alu)

HKDC1

Intron

2

CP068268.2:71 715 465

315

SINE (Alu)

SGPL1

Intron

2

CP068268.2:72 303 748

326

SINE (Alu)

CDH23

Intron

2

CP068268.2:76 207 681

49

Retroposon (SVA)

ZNF503-AS1

Intron

2

CP068268.2:83 352 109

485

Retroposon (SVA)

NRG3

Intron

2

CP068268.2:85 102 012

318

SINE (Alu)

LRIT2

Intron

2

CP068268.2:87 084 164

304

SINE (Alu)

GRID1

Intron

2

CP068268.2:87 790 483

323

SINE (Alu)

BMPR1A

Intron

2

CP068268.2:88 939 111

325

SINE (Alu)

LOC105378414

Intron

2

CP068268.2:91 338 874

313

SINE (Alu)

LINC02653

Intron

2

CP068268.2:91 351 314

316

SINE (Alu)

LINC02653

Intron

2

CP068268.2:95 402 253

3 279

Retroposon (SVA)

TBC1D12

Intron

2

CP068268.2:96 787 855

315

SINE (Alu)

CC2D2B

Intron

2

CP068268.2:99 145 741

328

SINE (Alu)

LOXL4

Intron

1

CP068268.2:99 427 122

154

SINE (Alu)

HPSE2

Intron

2

CP068268.2:100 722 705

224

Retroposon (SVA)

ABCC2

Intron

2

CP068268.2:100 876 071

321

SINE (Alu)

DNMBP

Intron

2

CP068268.2:102 885 604

319

SINE (Alu)

ARMH3

Intron

2

CP068268.2:102 921 235

141

Retroposon (SVA)

ARMH3

Intron

2

CP068268.2:104 015 839

229

Retroposon (SVA)

NT5C2

Intron

2

CP068268.2:104 225 372

312

SINE (Alu)

PCGF6

Intron

2

CP068268.2:105 697 311

328

SINE (Alu)

SORCS3

Intron

2

CP068268.2:116 140 819

315

SINE (Alu)

ATRNL1

Intron

2

CP068268.2:119 905 022

319

SINE (Alu)

LINC03036

Intron

2

CP068268.2:121 742 443

61

LTR (ERV1)

WDR11-DT

Intron

2

CP068268.2:131 025 575

97

LINE (L1)

C10orf143

Intron

2

CP068268.2:131 183 783

310

SINE (Alu)

LOC124900609

Intron

2

CP068269.2:4 819 340

287

SINE (Alu)

RCL1

Intron

2

CP068269.2:5 439 269

264

Retroposon (SVA)

PLGRKT

Intron

1

CP068269.2:6 295 538

714

LINE (L1)

LOC107987046

Intron

2

CP068269.2:6 804 463

98

Retroposon (SVA)

KDM4C

Intron

2

CP068269.2:6 885 377

311

SINE (Alu)

KDM4C

Intron

2

CP068269.2:8 652 319

274

SINE (Alu)

PTPRD

Intron

2

CP068269.2:9 145 491

320

SINE (Alu)

PTPRD

Intron

2

CP068269.2:14 642 210

104

LINE (L1)

ZDHHC21

Intron

2

CP068269.2:14 887 218

320

SINE (Alu)

FREM1

Intron

2

CP068269.2:16 401 598

326

SINE (Alu)

LOC124902125

Intron

2

CP068269.2:18 765 099

294

SINE (Alu)

ADAMTSL1

Intron

2

CP068269.2:22 072 341

76

SINE (Alu)

CDKN2B-AS1

Intron

2

CP068269.2:26 487 284

119

SINE (Alu)

LOC105375999

Intron

2

CP068269.2:34 293 360

333

SINE (Alu)

KIF24

Intron

2

CP068269.2:34 956 175

131

Retroposon (SVA)

PHF24

Intron

2

CP068269.2:35 038 160

64

LINE (L1)

LOC105376025

Intron

2

CP068269.2:76 857 935

68

LINE (L1)

LOC124906851

Intron

2

CP068269.2:81 331 129

316

SINE (Alu)

TJP2

Intron

1

CP068269.2:82 329 266

6 065

LINE (L1)

MAMDC2

Intron

2

CP068269.2:83 123 292

132

SINE (Alu)

TRPM3

Intron

2

CP068269.2:84 767 523

314

SINE (Alu)

TMC1

Intron

2

CP068269.2:85 078 955

343

SINE (Alu)

ALDH1A1

Intron

2

CP068269.2:88 222 509

405

Retroposon (SVA)

PCSK5

Intron

2

CP068269.2:88 992 783

329

SINE (Alu)

PRUNE2

Intron

2

CP068269.2:89 451 562

321

SINE (Alu)

VPS13A

Intron

2

CP068269.2:103 462 337

731

LINE (L1)

AUH

Intron

2

CP068269.2:104 686 550

320

SINE (Alu)

CENPP

Intron

2

CP068269.2:104 997 508

136

Retroposon (SVA)

ANKRD19P

Intron

1

CP068269.2:106 136 047

252

SINE (Alu)

LOC124902216

Intron

2

CP068269.2:106 794 432

313

SINE (Alu)

FBP1

Intron

2

CP068269.2:112 443 781

81

SINE (Alu)

INVS

Intron

2

CP068269.2:113 619 696

310

SINE (Alu)

LOC105376184

Intron

2

CP068269.2:115 487 860

191

SINE (Alu)

LINC01492

Intron

1

CP068269.2:119 632 662

60

SINE (Alu)

LINC01509

Intron

2

CP068269.2:124 311 520

314

SINE (Alu)

SUSD1

Intron

2

CP068269.2:124 685 981

227

Retroposon (SVA)

KIAA1958

Intron

1

CP068269.2:124 686 240

177

Retroposon (SVA)

KIAA1958

Intron

1

CP068269.2:125 406 178

320

SINE (Alu)

FKBP15

Intron

2

CP068269.2:141 137 397

133

SINE (Alu)

PHYHD1

Intron

2

CP068269.2:144 740 730

2 976

LINE (L1)

CFAP77

Intron

2

CP068269.2:146 110 857

226

Retroposon (SVA)

VAV2

Intron

1

CP068269.2:150 489 512

227

LINE (L1)

FAM157B

Intron

1

CP068269.2:376 471

59

SINE (Alu)

DOCK8

Intron

1

CP068269.2:863 345

114

Retroposon (SVA)

DMRT1

Intron

2

CP068270.2:3 524 025

325

SINE (Alu)

CSMD1

Intron

2

CP068270.2:5 725 123

607

LINE (L1)

LOC105377795

Intron

2

CP068270.2:6 485 699

318

SINE (Alu)

AGPAT5

Intron

2

CP068270.2:10 681 512

321

SINE (Alu)

ERI1

Intron

2

CP068270.2:12 907 672

329

SINE (Alu)

LOC729732

Intron

2

CP068270.2:13 365 524

334

SINE (Alu)

DLC1

Intron

2

CP068270.2:15 957 256

322

SINE (Alu)

TUSC3

Intron

1

CP068270.2:17 372 585

319

SINE (Alu)

MICU3

Intron

2

CP068270.2:17 675 688

323

SINE (Alu)

MTMR7

Intron

2

CP068270.2:19 059 693

972

LTR (ERVK)

PSD3

Intron

2

CP068270.2:25 737 763

49

SINE (Alu)

CDCA2

Intron

2

CP068270.2:26 048 555

112

LINE (L1)

LOC107986933

Intron

2

CP068270.2:28 963 145

129

LINE (L1)

EXTL3

Promoter

2

CP068270.2:28 963 145

129

LINE (L1)

EXTL3

Intron

2

CP068270.2:32 796 257

196

LINE (L1)

NRG1

Intron

2

CP068270.2:34 175 409

292

SINE (Alu)

LOC105379364

Intron

2

CP068270.2:40 852 584

6 101

LINE (L1)

ZMAT4

Intron

2

CP068270.2:42 456 695

310

SINE (Alu)

PLAT

Intron

2

CP068270.2:48 487 704

321

SINE (Alu)

LOC107986941

Intron

2

CP068270.2:54 436 680

313

SINE (Alu)

LYPLA1-TCEA1

Intron

2

CP068270.2:55 498 084

333

SINE (Alu)

XKR4

Intron

2

CP068270.2:55 866 232

315

SINE (Alu)

XKR4

Intron

2

CP068270.2:60 716 533

315

SINE (Alu)

LOC105375864

Intron

2

CP068270.2:61 037 962

321

SINE (Alu)

RAB2A

Intron

2

CP068270.2:66 658 366

175

Retroposon (SVA)

LOC102724687

Intron

1

CP068270.2:73 800 713

326

SINE (Alu)

LOC105375899

Promoter

2

CP068270.2:74 052 032

170

SINE (Alu)

STAU2

Intron

2

CP068270.2:74 150 241

327

SINE (Alu)

STAU2

Intron

2

CP068270.2:76 854 880

1 039

LINE (L1)

LINC01111

Intron

2

CP068270.2:94 275 050

314

SINE (Alu)

LINC02906

Intron

2

CP068270.2:96 503 803

231

SINE (Alu)

CFAP418-AS1

Intron

2

CP068270.2:96 580 482

315

SINE (Alu)

CFAP418-AS1

Intron

1

CP068270.2:98 461 839

321

SINE (Alu)

LOC101927066

Intron

2

CP068270.2:99 578 329

325

SINE (Alu)

STK3

Intron

2

CP068270.2:106 015 693

335

SINE (Alu)

LOC105375694

Intron

2

CP068270.2:106 786 176

330

SINE (Alu)

ZFPM2

Intron

2

CP068270.2:107 627 313

323

SINE (Alu)

OXR1

Intron

2

CP068270.2:107 844 447

325

SINE (Alu)

OXR1

Intron

2

CP068270.2:110 465 615

302

SINE (Alu)

ENY2

Intron

2

CP068270.2:116 603 471

327

SINE (Alu)

TRPS1

Intron

2

CP068270.2:119 563 257

309

SINE (Alu)

SAMD12

Intron

2

CP068270.2:121 797 875

319

SINE (Alu)

SNTB1

Intron

1

CP068270.2:122 849 197

322

SINE (Alu)

LOC124906789

Intron

2

CP068270.2:123 646 343

311

SINE (Alu)

SMILR

Intron

2

CP068270.2:126 458 371

317

SINE (Alu)

NSMCE2

Intron

2

CP068270.2:132 282 389

311

SINE (Alu)

LOC105375760

Intron

2

CP068270.2:133 053 370

323

SINE (Alu)

EFR3A

Intron

2

CP068270.2:137 820 678

329

SINE (Alu)

LINC02055

Intron

2

CP068270.2:138 964 924

320

SINE (Alu)

LOC401478

Intron

2

CP068271.2:2 382 179

77

Retroposon (SVA)

SNX8

Intron

2

CP068271.2:2 674 652

107

SINE (Alu)

IQCE

Intron

2

CP068271.2:6 790 042

96

Retroposon (SVA)

LOC124901583

Intron

2

CP068271.2:8 616 432

317

SINE (Alu)

NXPH1

Intron

2

CP068271.2:14 540 334

319

SINE (Alu)

DGKB

Intron

2

CP068271.2:18 412 782

279

SINE (Alu)

HDAC9

Intron

2

CP068271.2:20 804 219

49

Retroposon (SVA)

ABCB5

Intron

1

CP068271.2:22 949 794

311

SINE (Alu)

TOMM7

Intron

2

CP068271.2:26 303 990

120

LINE (L1)

NFE2L3

Intron

2

CP068271.2:37 578 432

322

SINE (Alu)

ELMO1

Intron

2

CP068271.2:38 626 104

315

SINE (Alu)

AMPH

Intron

2

CP068271.2:38 630 323

336

SINE (Alu)

AMPH

Intron

2

CP068271.2:39 722 369

324

SINE (Alu)

YAE1-DT

Intron

2

CP068271.2:42 668 469

318

SINE (Alu)

LOC105375250

Promoter

2

CP068271.2:43 532 806

253

SINE (Alu)

HECW1

Intron

2

CP068271.2:45 911 341

325

SINE (Alu)

SEPTIN7P2

Intron

2

CP068271.2:48 018 075

321

SINE (Alu)

PKD1L1

Intron

2

CP068271.2:66 601 866

304

SINE (Alu)

ZNF92

Intron

1

CP068271.2:75 759 083

179

SINE (Alu)

GTF2IRD1

Intron

2

CP068271.2:77 895 803

300

SINE (Alu)

LINC03009

Intron

2

CP068271.2:79 582 546

322

SINE (Alu)

MAGI2

Intron

2

CP068271.2:83 623 827

326

SINE (Alu)

CACNA2D1

Intron

2

CP068271.2:84 052 406

316

SINE (Alu)

PCLO

Intron

2

CP068271.2:85 626 331

314

SINE (Alu)

SEMA3A

Intron

2

CP068271.2:86 363 451

307

SINE (Alu)

SEMA3D

Intron

2

CP068271.2:90 466 172

343

SINE (Alu)

ZNF804B

Intron

2

CP068271.2:91 220 124

318

SINE (Alu)

STEAP2-AS1

Intron

2

CP068271.2:91 992 917

206

Retroposon (SVA)

CDK14

Intron

2

CP068271.2:93 363 499

315

SINE (Alu)

CYP51A1

Intron

2

CP068271.2:96 385 565

328

SINE (Alu)

PPP1R9A

Intron

1

CP068271.2:96 708 060

292

SINE (Alu)

LOC107986823

Intron

2

CP068271.2:97 674 156

314

SINE (Alu)

LOC105375410

Intron

2

CP068271.2:98 667 753

315

SINE (Alu)

LOC105375416

Intron

2

CP068271.2:102 681 693

2 781

Retroposon (SVA)

COL26A1

Intron

2

CP068271.2:103 867 427

84

SINE (Alu)

POLR2J3-UPK3BL2

Intron

2

CP068271.2:104 162 973

334

SINE (Alu)

FAM185A

Intron

2

CP068271.2:106 264 512

103

SINE (Alu)

LOC101927902

Intron

2

CP068271.2:106 569 810

322

SINE (Alu)

SRPK2

Intron

2

CP068271.2:109 361 786

123

SINE (Alu)

LAMB4

Intron

1

CP068271.2:112 163 030

96

LINE (L1)

IMMP2L

Intron

2

CP068271.2:113 557 064

310

SINE (Alu)

ZNF277

Intron

2

CP068271.2:115 628 403

310

SINE (Alu)

FOXP2

Intron

2

CP068271.2:118 517 612

311

SINE (Alu)

ST7

Intron

2

CP068271.2:119 758 768

316

SINE (Alu)

LOC105375471

Intron

2

CP068271.2:126 270 363

316

SINE (Alu)

POT1-AS1

Intron

2

CP068271.2:126 339 967

165

LTR (ERVL)

POT1-AS1

Intron

2

CP068271.2:130 739 691

310

SINE (Alu)

AHCYL2

Intron

2

CP068271.2:132 092 197

152

SINE (Alu)

LOC105375508

Intron

2

CP068271.2:132 267 964

340

SINE (Alu)

LINC-PINT

Intron

2

CP068271.2:132 541 792

144

SINE (Alu)

MKLN1

Intron

2

CP068271.2:134 744 375

326

SINE (Alu)

EXOC4

Intron

2

CP068271.2:136 047 540

325

SINE (Alu)

LOC124901750

Intron

2

CP068271.2:136 812 007

334

SINE (Alu)

CNOT4

Intron

2

CP068271.2:138 459 440

318

SINE (Alu)

LOC349160

Intron

2

CP068271.2:140 191 659

282

SINE (Alu)

KIAA1549

Intron

2

CP068271.2:141 676 137

176

Retroposon (SVA)

SLC37A3

Intron

1

CP068271.2:141 676 145

213

Retroposon (SVA)

SLC37A3

Intron

1

CP068271.2:149 591 887

134

SINE (Alu)

CNTNAP2

Intron

2

CP068271.2:149 923 445

134

SINE (Alu)

CUL1

Intron

2

CP068271.2:150 303 197

308

SINE (Alu)

ZNF425

Intron

2

CP068271.2:151 854 517

90

SINE (Alu)

LOC124901774

Intron

2

CP068271.2:152 533 889

140

SINE (Alu)

NUB1

Intron

2

CP068271.2:155 766 181

330

SINE (Alu)

DPP6

Intron

2

CP068271.2:158 746 775

340

SINE (Alu)

PTPRN2

Intron

2

CP068272.2:5 217 730

320

SINE (Alu)

FARS2

Intron

2

CP068272.2:5 357 830

123

SINE (Alu)

FARS2

Intron

2

CP068272.2:6 146 362

258

SINE (Alu)

F13A1

Intron

2

CP068272.2:7 310 938

81

LTR (ERV1)

LOC102724234

Intron

2

CP068272.2:10 902 109

134

SINE (Alu)

ELOVL2

Intron

2

CP068272.2:13 332 877

318

SINE (Alu)

GFOD1

Intron

2

CP068272.2:13 394 506

330

SINE (Alu)

RPS4XP7

Promoter

2

CP068272.2:17 522 845

331

SINE (Alu)

NUP153

Intron

2

CP068272.2:17 747 146

316

SINE (Alu)

KIF13A

Intron

2

CP068272.2:19 027 502

322

SINE (Alu)

LOC101928519

Intron

2

CP068272.2:28 879 239

101

SINE (Alu)

ZNF311

Intron

2

CP068272.2:29 270 909

139

SINE (Alu)

OR12D2

Intron

2

CP068272.2:29 722 655

318

SINE (Alu)

LOC105375010

Intron

2

CP068272.2:30 680 514

159

LTR (ERV1)

LINC00243

Intron

2

CP068272.2:31 324 347

313

SINE (Alu)

HCG26

Promoter

2

CP068272.2:31 351 695

173

SINE (Alu)

MICB

Intron

2

CP068272.2:32 199 253

321

SINE (Alu)

TSBP1-AS1

Intron

2

CP068272.2:32 343 356

294

SINE (Alu)

LOC124905397

Promoter

2

CP068272.2:32 354 825

315

SINE (Alu)

HLA-DRB3

Intron

2

CP068272.2:32 410 001

319

SINE (Alu)

HLA-DRB1

Intron

1

CP068272.2:32 412 809

307

SINE (Alu)

HLA-DRB1

Intron

2

CP068272.2:32 421 491

285

SINE (Alu)

HLA-DRB1

Intron

1

CP068272.2:32 423 285

1 114

LTR (ERVK)

HLA-DRB1

Promoter

2

CP068272.2:32 487 036

319

SINE (Alu)

HLA-DQB1

Intron

2

CP068272.2:36 183 679

101

LTR (ERV1)

ETV7

Intron

1

CP068272.2:38 355 201

137

LTR (ERVK)

BTBD9

Intron

2

CP068272.2:38 746 508

50

LTR (ERV1)

DNAH8

Intron

2

CP068272.2:42 430 460

160

SINE (Alu)

UBR2

Intron

2

CP068272.2:42 896 868

322

SINE (Alu)

KLC4

Intron

2

CP068272.2:43 181 094

66

LINE (L1)

ZNF318

Intron

2

CP068272.2:43 757 249

314

SINE (Alu)

LINC01512

Intron

2

CP068272.2:43 979 893

978

Retroposon (SVA)

TMEM63B

Intron

2

CP068272.2:45 127 498

324

SINE (Alu)

SUPT3H

Intron

2

CP068272.2:45 835 182

327

SINE (Alu)

CLIC5

Intron

2

CP068272.2:51 717 831

6 018

LINE (L1)

PKHD1

Intron

2

CP068272.2:51 903 534

317

SINE (Alu)

PKHD1

Intron

1

CP068272.2:53 584 806

282

SINE (Alu)

LOC124901334

Intron

2

CP068272.2:53 623 893

313

SINE (Alu)

LOC124901333

Intron

2

CP068272.2:54 692 012

140

SINE (Alu)

FAM83B

Intron

2

CP068272.2:56 735 170

2 593

Retroposon (SVA)

DST

Intron

2

CP068272.2:62 724 632

133

SINE (Alu)

KHDRBS2

Intron

2

CP068272.2:66 430 398

306

SINE (Alu)

EYS

Intron

2

CP068272.2:66 607 855

308

SINE (Alu)

EYS

Intron

2

CP068272.2:66 716 755

327

SINE (Alu)

EYS

Intron

1

CP068272.2:70 011 053

326

SINE (Alu)

ADGRB3

Intron

2

CP068272.2:70 300 658

75

Retroposon (SVA)

ADGRB3

Intron

2

CP068272.2:72 510 962

313

SINE (Alu)

LOC124901339

Intron

2

CP068272.2:73 224 839

301

SINE (Alu)

RIMS1

Intron

2

CP068272.2:75 805 446

325

SINE (Alu)

LOC101928516

Intron

2

CP068272.2:76 483 619

49

SINE (Alu)

FILIP1

Intron

2

CP068272.2:78 884 410

321

SINE (Alu)

MEI4

Intron

2

CP068272.2:79 310 809

290

SINE (Alu)

LOC105377865

Intron

2

CP068272.2:84 185 928

313

SINE (Alu)

UBE3D

Intron

2

CP068272.2:91 454 963

6 067

LINE (L1)

BACH2

Intron

2

CP068272.2:97 577 072

329

LTR (ERV1)

UFL1-AS1

Intron

1

CP068272.2:97 741 692

319

SINE (Alu)

FHL5

Intron

2

CP068272.2:105 950 363

309

SINE (Alu)

HACE1

Intron

2

CP068272.2:109 130 963

270

Retroposon (SVA)

SEC63

Intron

1

CP068272.2:111 652 259

308

SINE (Alu)

SLC22A16

Intron

2

CP068272.2:117 169 354

289

SINE (Alu)

FRK

Intron

2

CP068272.2:117 706 715

316

SINE (Alu)

TRAPPC3L

Intron

2

CP068272.2:119 490 091

295

SINE (Alu)

SLC35F1

Intron

2

CP068272.2:123 847 137

320

SINE (Alu)

PKIB

Intron

2

CP068272.2:131 488 431

283

SINE (Alu)

SAMD3

Intron

2

CP068272.2:132 890 430

328

SINE (Alu)

ENPP3

Intron

2

CP068272.2:134 599 477

177

SINE (Alu)

EYA4

Intron

2

CP068272.2:140 162 116

320

SINE (Alu)

REPS1

Intron

1

CP068272.2:140 470 041

315

SINE (Alu)

LOC102723690

Intron

2

CP068272.2:146 891 518

343

SINE (Alu)

EPM2A

Intron

2

CP068272.2:155 567 177

275

SINE (Alu)

LOC105378067

Promoter

2

CP068272.2:155 567 177

275

SINE (Alu)

LOC105378067

Intron

2

CP068272.2:157 199 315

307

SINE (Alu)

LOC101928923

Intron

2

CP068272.2:158 278 908

327

SINE (Alu)

ARID1B

Intron

2

CP068272.2:159 373 455

1 102

Retroposon (SVA)

SERAC1

Intron

2

CP068272.2:159 484 439

527

Retroposon (SVA)

TULP4

Intron

1

CP068272.2:159 484 457

126

Retroposon (SVA)

TULP4

Intron

1

CP068272.2:159 484 658

400

Retroposon (SVA)

TULP4

Intron

1

CP068272.2:159 484 900

342

Retroposon (SVA)

TULP4

Intron

1

CP068272.2:159 485 235

347

Retroposon (SVA)

TULP4

Intron

2

CP068272.2:163 955 920

360

SINE (Alu)

PRKN

Intron

2

CP068272.2:167 234 415

324

SINE (Alu)

PDE10A

Intron

1

CP068272.2:170 025 258

352

LTR (ERV1)

LOC105378143

Intron

2

CP068273.2:1 857 117

311

SINE (Alu)

LOC124901165

Intron

2

CP068273.2:1 883 626

3 184

LINE (L1)

LOC105374618

Intron

2

CP068273.2:13 792 771

312

SINE (Alu)

DNAH5

Intron

2

CP068273.2:14 625 306

222

SINE (Alu)

OTULIN

Intron

2

CP068273.2:16 655 697

310

SINE (Alu)

MYO10

Intron

2

CP068273.2:20 465 006

163

SINE (Alu)

CDH18

Intron

2

CP068273.2:25 338 978

294

SINE (Alu)

LINC02211

Intron

2

CP068273.2:32 854 713

329

SINE (Alu)

NPR3

Intron

2

CP068273.2:37 665 203

153

Retroposon (SVA)

WDR70

Intron

2

CP068273.2:37 812 856

625

Retroposon (SVA)

WDR70

Intron

2

CP068273.2:37 937 889

282

SINE (Alu)

WDR70

Intron

2

CP068273.2:39 542 380

332

SINE (Alu)

C9

Intron

2

CP068273.2:42 919 106

337

SINE (Alu)

GHR

Intron

2

CP068273.2:43 769 164

68

LTR (ERV1)

LOC124900190

Intron

2

CP068273.2:43 795 329

321

SINE (Alu)

PAIP1

Intron

2

CP068273.2:63 380 904

323

SINE (Alu)

IPO11

Intron

2

CP068273.2:66 799 023

343

Retroposon (SVA)

ERBIN

Intron

2

CP068273.2:69 790 093

650

LINE (L1)

LOC107984116

Intron

2

CP068273.2:70 611 005

329

SINE (Alu)

LOC124906514

Intron

2

CP068273.2:70 867 341

328

SINE (Alu)

GUSBP15

Intron

1

CP068273.2:71 140 624

328

SINE (Alu)

GUSBP15

Intron

1

CP068273.2:76 653 910

176

Retroposon (SVA)

SV2C

Intron

2

CP068273.2:77 524 535

146

Retroposon (SVA)

AGGF1

Intron

1

CP068273.2:78 235 160

335

SINE (Alu)

TBCA

Intron

1

CP068273.2:78 248 785

311

SINE (Alu)

TBCA

Intron

1

CP068273.2:78 760 227

284

SINE (Alu)

AP3B1

Intron

2

CP068273.2:81 228 496

308

SINE (Alu)

MSH3

Intron

2

CP068273.2:83 675 995

306

SINE (Alu)

XRCC4

Intron

2

CP068273.2:88 585 051

329

SINE (Alu)

LOC105379070

Intron

2

CP068273.2:91 188 443

154

SINE (Alu)

ADGRV1

Intron

2

CP068273.2:109 845 795

97

Retroposon (SVA)

PJA2

Intron

2

CP068273.2:111 260 797

171

SINE (Alu)

SLC25A46

Intron

2

CP068273.2:111 960 940

186

SINE (Alu)

CAMK4

Intron

2

CP068273.2:115 269 236

313

SINE (Alu)

LOC101927078

Intron

2

CP068273.2:116 675 590

310

SINE (Alu)

COMMD10

Intron

1

CP068273.2:118 013 084

306

SINE (Alu)

LINC00992

Intron

2

CP068273.2:123 455 525

320

SINE (Alu)

SNX24

Intron

2

CP068273.2:123 753 516

522

LINE (L1)

TUBB8P11

Intron

2

CP068273.2:138 214 048

1 321

Retroposon (SVA)

KLHL3

Intron

2

CP068273.2:138 669 937

65

LTR (ERV1)

BRD8

Intron

2

CP068273.2:139 924 858

293

SINE (Alu)

SPATA24

Intron

2

CP068273.2:143 506 739

304

SINE (Alu)

ARHGAP26

Intron

2

CP068273.2:147 526 118

318

SINE (Alu)

PPP2R2B

Intron

2

CP068273.2:150 072 540

318

SINE (Alu)

CSNK1A1

Intron

2

CP068273.2:155 492 380

2 717

Retroposon (SVA)

MRPL22

Intron

2

CP068273.2:156 439 730

2 491

LINE (L1)

SGCD

Intron

2

CP068273.2:163 927 719

172

LINE (L1)

LOC105377700

Intron

2

CP068273.2:165 474 497

309

SINE (Alu)

LINC03000

Intron

2

CP068273.2:168 395 198

899

Retroposon (SVA)

TENM2

Intron

2

CP068273.2:180 746 045

173

SINE (Alu)

RASGEF1C

Intron

2

CP068274.2:1 306 582

316

SINE (Alu)

MAEA

Intron

2

CP068274.2:1 318 271

132

SINE (Alu)

MAEA

Intron

2

CP068274.2:4 626 805

51

SINE (MIR)

STX18-AS1

Intron

2

CP068274.2:6 949 610

159

Retroposon (SVA)

TBC1D14

Intron

1

CP068274.2:6 949 676

159

Retroposon (SVA)

TBC1D14

Intron

1

CP068274.2:8 373 198

159

SINE (Alu)

ACOX3

Intron

2

CP068274.2:10 607 028

6 059

LINE (L1)

CLNK

Intron

2

CP068274.2:10 696 742

220

SINE (Alu)

CLNK

Intron

2

CP068274.2:14 827 301

5 463

LINE (L1)

LINC00504

Intron

2

CP068274.2:14 937 063

114

LTR (ERVL)

CPEB2-DT

Intron

2

CP068274.2:15 773 375

497

Retroposon (SVA)

CD38

Intron

2

CP068274.2:16 374 994

71

Retroposon (SVA)

LOC105374505

Intron

2

CP068274.2:16 374 994

121

Retroposon (SVA)

LOC105374505

Intron

1

CP068274.2:19 202 987

313

SINE (Alu)

LINC02438

Intron

2

CP068274.2:20 388 569

987

LINE (L1)

SLIT2

Intron

2

CP068274.2:25 221 331

140

LTR (ERV1)

PI4K2B

Intron

2

CP068274.2:25 809 920

145

SINE (Alu)

SEL1L3

Intron

2

CP068274.2:26 470 139

281

SINE (Alu)

CCKAR

Intron

1

CP068274.2:28 304 766

311

SINE (Alu)

LOC105374557

Intron

2

CP068274.2:30 879 423

320

SINE (Alu)

PCDH7

Intron

2

CP068274.2:36 292 568

313

SINE (Alu)

DTHD1

Intron

2

CP068274.2:37 478 028

86

Retroposon (SVA)

C4orf19

Intron

2

CP068274.2:39 675 502

162

SINE (Alu)

UBE2K

Intron

2

CP068274.2:40 853 100

332

SINE (Alu)

APBB2

Intron

2

CP068274.2:41 203 745

338

SINE (Alu)

UCHL1-DT

Intron

2

CP068274.2:41 892 608

309

SINE (Alu)

LOC105374426

Intron

2

CP068274.2:41 995 740

182

SINE (Alu)

SLC30A9

Intron

2

CP068274.2:47 509 431

333

SINE (Alu)

ATP10D

Intron

2

CP068274.2:58 993 922

320

SINE (Alu)

CLOCK

Intron

2

CP068274.2:59 545 991

194

SINE (Alu)

CRACD

Intron

2

CP068274.2:67 788 030

290

SINE (Alu)

TECRL

Intron

2

CP068274.2:72 534 968

322

SINE (Alu)

UGT2B7

Intron

2

CP068274.2:72 690 165

265

LINE (L1)

TUBB8P11

Intron

2

CP068274.2:73 581 960

186

LINE (L1)

CSN3

Promoter

2

CP068274.2:73 581 960

186

LINE (L1)

CSN3

Intron

2

CP068274.2:81 689 174

6 068

LINE (L1)

FRAS1

Intron

2

CP068274.2:82 894 257

83

LTR (ERV1)

LINC00989

Intron

2

CP068274.2:83 183 785

685

LINE (L1)

PCAT4

Intron

2

CP068274.2:83 303 274

6 057

LINE (L1)

ANTXR2

Intron

2

CP068274.2:85 588 188

303

SINE (Alu)

LOC105377308

Intron

2

CP068274.2:85 803 947

316

SINE (Alu)

LOC105377310

Intron

2

CP068274.2:88 878 813

316

SINE (Alu)

ARHGAP24

Intron

2

CP068274.2:88 913 506

72

LINE (L1)

ARHGAP24

Intron

2

CP068274.2:90 440 357

329

SINE (Alu)

AFF1

Intron

2

CP068274.2:92 373 426

216

SINE (Alu)

FAM13A

Intron

1

CP068274.2:93 980 210

61

LTR (ERVL)

CCSER1

Intron

2

CP068274.2:94 335 928

1 735

LINE (L1)

CCSER1

Intron

1

CP068274.2:95 798 087

316

SINE (Alu)

GRID2

Intron

2

CP068274.2:96 959 694

6 047

LINE (L1)

GRID2

Intron

2

CP068274.2:98 264 406

317

SINE (Alu)

BMPR1B

Intron

2

CP068274.2:99 966 117

316

SINE (Alu)

LINC02267

Intron

2

CP068274.2:106 266 328

2 504

LINE (L1)

SLC9B1

Intron

2

CP068274.2:107 986 922

312

SINE (Alu)

CXXC4-AS1

Intron

2

CP068274.2:112 879 734

320

SINE (Alu)

MCUB

Intron

2

CP068274.2:117 763 832

318

SINE (Alu)

LOC105377379

Intron

2

CP068274.2:120 081 692

901

LINE (L1)

LOC107986306

Intron

1

CP068274.2:124 831 135

179

SINE (Alu)

LOC107986310

Intron

2

CP068274.2:126 179 534

277

SINE (Alu)

FGF2

Intron

2

CP068274.2:127 013 551

129

LINE (L1)

LINC01091

Intron

2

CP068274.2:130 985 011

310

SINE (Alu)

INTU

Intron

2

CP068274.2:131 590 178

321

SINE (Alu)

PGRMC2

Intron

2

CP068274.2:143 337 477

149

SINE (Alu)

MAML3

Intron

2

CP068274.2:145 654 380

312

SINE (Alu)

INPP4B

Intron

2

CP068274.2:146 289

3 374

Retroposon (SVA)

ZNF718

Intron

2

CP068274.2:147 791 504

326

SINE (Alu)

LOC105377462

Intron

2

CP068274.2:152 561 796

338

SINE (Alu)

LINC02355

Intron

2

CP068274.2:153 595 372

142

LINE (L1)

LRBA

Intron

2

CP068274.2:153 696 604

324

SINE (Alu)

LRBA

Intron

2

CP068274.2:153 984 112

97

Retroposon (SVA)

LRBA

Intron

2

CP068274.2:154 538 658

126

Retroposon (SVA)

SH3D19

Intron

1

CP068274.2:157 304 320

324

SINE (Alu)

LOC101927947

Intron

2

CP068274.2:158 831 227

103

SINE (Alu)

LOC105377505

Intron

2

CP068274.2:163 055 731

321

SINE (Alu)

LOC107986324

Intron

2

CP068274.2:164 785 720

310

SINE (Alu)

FSTL5

Intron

1

CP068274.2:166 928 648

313

SINE (Alu)

MARCHF1

Intron

2

CP068274.2:167 229 299

309

SINE (Alu)

MARCHF1

Intron

2

CP068274.2:168 130 293

57

SINE (Alu)

SMIM31

Intron

2

CP068274.2:169 429 777

591

LINE (L1)

TLL1

Intron

2

CP068274.2:173 273 624

299

SINE (Alu)

LOC105377530

Intron

1

CP068274.2:176 567 724

317

SINE (Alu)

GALNT7

Intron

2

CP068274.2:177 630 266

311

SINE (Alu)

CEP44

Intron

2

CP068274.2:177 952 805

325

SINE (Alu)

LOC105377549

Promoter

2

CP068274.2:177 952 805

325

SINE (Alu)

LOC105377549

Intron

2

CP068274.2:180 879 949

64

LTR (ERV1)

AGA-DT

Intron

1

CP068274.2:183 743 146

133

SINE (Alu)

LOC105377567

Intron

2

CP068274.2:183 970 626

312

SINE (Alu)

LOC105377567

Intron

2

CP068274.2:184 287 169

205

Retroposon (SVA)

LOC105377567

Intron

2

CP068274.2:188 577 957

311

SINE (Alu)

SNX25

Intron

2

CP068274.2:188 770 999

325

SINE (Alu)

CFAP96

Intron

2

CP068274.2:188 804 270

286

SINE (Alu)

CCDC110

Intron

2

CP068275.2:1 238 682

63

LTR (ERV1)

CNTN6

Intron

2

CP068275.2:2 123 290

336

SINE (Alu)

CNTN4

Intron

2

CP068275.2:2 584 962

313

SINE (Alu)

CNTN4

Intron

2

CP068275.2:5 436 105

317

SINE (Alu)

LOC105376936

Promoter

2

CP068275.2:7 119 409

64

SINE (Alu)

GRM7

Intron

2

CP068275.2:7 563 823

309

SINE (Alu)

GRM7

Intron

2

CP068275.2:11 157 429

314

SINE (Alu)

HRH1

Intron

2

CP068275.2:11 482 565

147

Retroposon (SVA)

ATG7

Intron

2

CP068275.2:12 308 635

309

SINE (Alu)

PPARG

Intron

2

CP068275.2:19 974 106

100

SINE (Alu)

RAB5A

Intron

1

CP068275.2:24 782 411

319

SINE (Alu)

LOC107986070

Intron

1

CP068275.2:25 351 239

317

SINE (Alu)

RARB

Intron

2

CP068275.2:25 630 260

315

SINE (Alu)

TOP2B

Intron

2

CP068275.2:28 128 299

323

SINE (Alu)

LOC105377008

Intron

2

CP068275.2:29 581 534

319

SINE (Alu)

RBMS3

Intron

2

CP068275.2:32 005 643

94

LTR (ERV1)

OSBPL10

Intron

1

CP068275.2:32 394 273

253

SINE (Alu)

CMTM7

Intron

2

CP068275.2:35 011 146

322

SINE (Alu)

LOC101928135

Intron

2

CP068275.2:36 454 965

138

LTR (ERV1)

STAC

Intron

2

CP068275.2:38 085 678

298

Retroposon (SVA)

DLEC1

Intron

2

CP068275.2:38 119 250

134

SINE (Alu)

DLEC1

Intron

2

CP068275.2:45 517 532

316

SINE (Alu)

LARS2

Intron

2

CP068275.2:45 742 852

321

SINE (Alu)

SACM1L

Intron

2

CP068275.2:47 760 449

319

SINE (Alu)

SMARCC1

Intron

2

CP068275.2:48 737 575

325

SINE (Alu)

IP6K2

Intron

2

CP068275.2:49 943 579

323

SINE (Alu)

MON1A

Intron

2

CP068275.2:50 054 727

266

SINE (Alu)

RBM6

Intron

2

CP068275.2:50 341 806

95

Retroposon (SVA)

HYAL1

Intron

1

CP068275.2:50 871 694

344

SINE (Alu)

DOCK3

Intron

2

CP068275.2:51 280 052

76

Retroposon (SVA)

DOCK3

Intron

1

CP068275.2:51 280 097

124

Retroposon (SVA)

DOCK3

Intron

1

CP068275.2:51 618 731

135

SINE (Alu)

RAD54L2

Intron

1

CP068275.2:57 489 364

483

LTR (ERV1)

DNAH12

Intron

1

CP068275.2:57 618 834

308

SINE (Alu)

PDE12

Intron

2

CP068275.2:59 950 161

113

SINE (Alu)

FHIT

Intron

2

CP068275.2:61 714 843

176

Retroposon (SVA)

PTPRG

Intron

2

CP068275.2:63 598 884

311

SINE (Alu)

SYNPR

Intron

2

CP068275.2:66 758 056

136

SINE (Alu)

LOC105377142

Intron

1

CP068275.2:66 961 938

131

LINE (L1)

LOC105377144

Intron

1

CP068275.2:68 464 026

50

LTR (ERV1)

TAFA1

Intron

2

CP068275.2:68 858 645

274

SINE (Alu)

TAFA4

Intron

2

CP068275.2:68 878 080

290

SINE (Alu)

TAFA4

Intron

2

CP068275.2:71 229 921

300

SINE (Alu)

FOXP1

Intron

2

CP068275.2:78 864 624

88

LINE (L1)

ROBO1

Intron

2

CP068275.2:80 595 595

6 098

LINE (L1)

LOC105377177

Intron

2

CP068275.2:82 148 803

6 115

LINE (L1)

LINC02008

Intron

2

CP068275.2:82 376 966

107

LTR (ERV1)

LINC02008

Intron

2

CP068275.2:101 546 113

225

Retroposon (SVA)

DCBLD2

Intron

1

CP068275.2:103 397 456

327

SINE (Alu)

ADGRG7

Intron

1

CP068275.2:104 176 251

320

SINE (Alu)

SENP7

Intron

2

CP068275.2:104 197 720

134

SINE (Alu)

SENP7

Intron

2

CP068275.2:110 894 252

325

SINE (Alu)

IFT57

Intron

2

CP068275.2:114 228 331

327

SINE (Alu)

LOC105374039

Intron

2

CP068275.2:114 926 706

49

LINE (L1)

SLC9C1

Intron

2

CP068275.2:117 366 880

320

SINE (Alu)

ZBTB20

Intron

2

CP068275.2:125 139 153

324

SINE (Alu)

WDR5B-DT

Intron

2

CP068275.2:125 466 962

174

Retroposon (SVA)

HSPBAP1

Intron

1

CP068275.2:127 413 483

317

SINE (Alu)

KALRN

Intron

2

CP068275.2:127 593 655

324

SINE (Alu)

ITGB5

Intron

2

CP068275.2:132 210 422

310

SINE (Alu)

IFT122

Intron

2

CP068275.2:135 215 089

406

Retroposon (SVA)

DNAJC13

Intron

2

CP068275.2:135 215 491

48

Retroposon (SVA)

DNAJC13

Intron

1

CP068275.2:146 290 331

107

SINE (Alu)

SLC9A9

Intron

2

CP068275.2:148 980 021

49

LTR (ERV1)

PLSCR4

Intron

2

CP068275.2:151 234 494

260

LINE (L1)

LOC105374150

Intron

1

CP068275.2:151 234 633

260

LINE (L1)

LOC105374150

Intron

1

CP068275.2:151 318 626

3 976

LTR (ERVK)

LOC105374150

Intron

2

CP068275.2:152 131 587

97

Retroposon (SVA)

TM4SF1-AS1

Intron

2

CP068275.2:152 131 779

252

Retroposon (SVA)

TM4SF1-AS1

Intron

2

CP068275.2:159 296 741

308

SINE (Alu)

KCNAB1

Intron

2

CP068275.2:159 953 140

73

Retroposon (SVA)

LOC101928236

Intron

2

CP068275.2:159 953 717

72

Retroposon (SVA)

LOC101928236

Intron

1

CP068275.2:175 468 147

319

SINE (Alu)

NCEH1

Intron

2

CP068275.2:176 823 768

688

LINE (L1)

NLGN1

Intron

2

CP068275.2:177 480 228

322

SINE (Alu)

NAALADL2

Intron

2

CP068275.2:180 260 568

86

LTR (ERV1)

LINC00578

Intron

1

CP068275.2:181 925 312

67

Retroposon (SVA)

PIK3CA-DT

Intron

2

CP068275.2:182 531 561

147

Retroposon (SVA)

USP13

Intron

2

CP068275.2:182 720 564

329

SINE (Alu)

PEX5L-AS2

Intron

2

CP068275.2:183 568 171

324

SINE (Alu)

LOC101928882

Intron

2

CP068275.2:191 982 178

322

SINE (Alu)

TPRG1

Intron

2

CP068275.2:193 255 336

187

SINE (Alu)

TMEM207

Intron

2

CP068275.2:198 682 493

309

SINE (Alu)

SDHAP1

Intron

2

CP068275.2:198 755 196

328

SINE (Alu)

TFRC

Intron

2

CP068275.2:200 460 370

71

SINE (Alu)

RUBCN

Intron

2

CP068276.2:1 142 774

278

SINE (Alu)

SNTG2

Intron

2

CP068276.2:1 468 423

328

SINE (Alu)

TPO

Intron

2

CP068276.2:2 305 670

1 051

LTR (ERV1)

MYT1L

Intron

1

CP068276.2:3 693 805

313

SINE (Alu)

ALLC

Promoter

2

CP068276.2:3 693 805

313

SINE (Alu)

ALLC

Intron

2

CP068276.2:15 643 219

127

Retroposon (SVA)

DDX1

Intron

1

CP068276.2:19 661 976

317

SINE (Alu)

LOC124905977

Intron

2

CP068276.2:24 290 241

122

SINE (Alu)

ITSN2

Intron

2

CP068276.2:26 286 406

329

SINE (Alu)

HADHB

Intron

2

CP068276.2:28 174 642

324

SINE (Alu)

BABAM2

Intron

2

CP068276.2:29 627 130

318

SINE (Alu)

ALK

Intron

2

CP068276.2:34 078 377

316

SINE (Alu)

LINC01317

Intron

2

CP068276.2:40 395 538

331

SINE (Alu)

SLC8A1

Intron

2

CP068276.2:43 303 089

146

Retroposon (SVA)

THADA

Intron

2

CP068276.2:43 303 395

713

Retroposon (SVA)

THADA

Intron

2

CP068276.2:44 594 092

211

Retroposon (SVA)

CAMKMT

Intron

2

CP068276.2:44 604 010

316

SINE (Alu)

CAMKMT

Intron

2

CP068276.2:48 560 593

3 151

Retroposon (SVA)

STON1-GTF2A1L

Intron

2

CP068276.2:50 018 029

132

SINE (Alu)

NRXN1

Intron

2

CP068276.2:50 985 182

333

SINE (Alu)

NRXN1

Intron

2

CP068276.2:51 238 237

297

SINE (Alu)

NRXN1-DT

Intron

2

CP068276.2:51 890 531

2 225

LINE (L1)

NRXN1-DT

Intron

2

CP068276.2:54 094 149

324

SINE (Alu)

ACYP2

Intron

2

CP068276.2:54 460 543

251

SINE (Alu)

SPTBN1

Promoter

2

CP068276.2:54 460 543

251

SINE (Alu)

SPTBN1

Intron

2

CP068276.2:56 143 345

317

SINE (Alu)

LOC105374690

Intron

2

CP068276.2:62 280 994

312

SINE (Alu)

LOC105374761

Intron

2

CP068276.2:63 730 038

322

Retroposon (SVA)

WDPCP

Intron

1

CP068276.2:65 116 309

305

SINE (Alu)

RAB1A

Intron

2

CP068276.2:69 529 836

322

SINE (Alu)

AAK1

Intron

2

CP068276.2:72 253 512

6 061

LINE (L1)

EXOC6B

Intron

2

CP068276.2:74 292 982

328

SINE (Alu)

SLC4A5

Intron

2

CP068276.2:77 094 493

60

LTR (ERV1)

LRRTM4

Intron

1

CP068276.2:77 094 493

60

LTR (ERV1)

LRRTM4

Intron

1

CP068276.2:81 871 469

6 015

LINE (L1)

LOC105374829

Intron

2

CP068276.2:86 976 073

311

SINE (Alu)

RGPD1

Intron

1

CP068276.2:87 918 971

450

LINE (L1)

RGPD2

Intron

2

CP068276.2:102 198 725

315

SINE (Alu)

MAP4K4

Intron

2

CP068276.2:107 771 785

320

SINE (Alu)

LINC01789

Intron

2

CP068276.2:111 709 562

327

SINE (Alu)

MIR4435-2HG

Intron

2

CP068276.2:115 501 221

316

SINE (Alu)

DPP10

Intron

2

CP068276.2:116 195 329

4 143

LINE (L1)

DPP10

Intron

2

CP068276.2:127 553 905

228

Retroposon (SVA)

LOC105373605

Intron

1

CP068276.2:128 734 017

288

SINE (Alu)

HS6ST1

Intron

2

CP068276.2:131 521 066

317

SINE (Alu)

FAM168B

Intron

2

CP068276.2:133 554 578

318

SINE (Alu)

NCKAP5

Intron

2

CP068276.2:137 933 686

324

SINE (Alu)

THSD7B

Intron

2

CP068276.2:141 222 232

325

SINE (Alu)

LRP1B

Intron

2

CP068276.2:141 752 398

57

LINE (L1)

LRP1B

Intron

2

CP068276.2:142 014 066

316

SINE (Alu)

LRP1B

Intron

1

CP068276.2:148 342 955

300

SINE (Alu)

ACVR2A

Intron

2

CP068276.2:150 220 893

319

SINE (Alu)

MMADHC-DT

Intron

2

CP068276.2:153 756 655

320

SINE (Alu)

GALNT13

Intron

2

CP068276.2:158 030 254

325

SINE (Alu)

ACVR1C

Intron

2

CP068276.2:158 882 881

328

SINE (Alu)

CCDC148

Intron

2

CP068276.2:169 073 025

328

SINE (Alu)

CERS6

Intron

2

CP068276.2:169 505 778

323

SINE (Alu)

ABCB11

Intron

2

CP068276.2:172 938 241

314

SINE (Alu)

ITGA6

Intron

2

CP068276.2:175 359 957

318

SINE (Alu)

CHN1

Intron

2

CP068276.2:177 936 293

334

SINE (Alu)

AGPS

Intron

1

CP068276.2:177 969 024

339

SINE (Alu)

AGPS

Intron

2

CP068276.2:178 294 120

216

LINE (L1)

PDE11A

Intron

2

CP068276.2:181 551 423

321

SINE (Alu)

UBE2E3

Intron

2

CP068276.2:182 940 163

309

SINE (Alu)

PDE1A

Intron

2

CP068276.2:187 840 214

313

SINE (Alu)

CALCRL-AS1

Intron

2

CP068276.2:191 887 362

476

Retroposon (SVA)

MYO1B

Intron

1

CP068276.2:192 410 401

157

LTR (ERV1)

CAVIN2-AS1

Intron

1

CP068276.2:192 619 884

241

LTR (ERV1)

TMEFF2

Intron

1

CP068276.2:196 356 056

275

SINE (Alu)

DNAH7

Intron

2

CP068276.2:198 382 303

310

SINE (Alu)

PLCL1

Intron

2

CP068276.2:198 513 690

136

SINE (Alu)

PLCL1

Intron

2

CP068276.2:201 680 598

334

SINE (Alu)

CASP10

Intron

2

CP068276.2:201 765 377

3 172

Retroposon (SVA)

CASP8

Intron

2

CP068276.2:208 081 694

324

SINE (Alu)

METTL21A

Intron

2

CP068276.2:209 066 826

324

SINE (Alu)

LOC101927960

Intron

2

CP068276.2:212 323 899

315

SINE (Alu)

ERBB4

Intron

2

CP068276.2:212 461 340

258

SINE (Alu)

ERBB4

Intron

2

CP068276.2:214 127 683

242

SINE (Alu)

SPAG16

Intron

2

CP068276.2:214 395 182

306

SINE (Alu)

SPAG16

Intron

2

CP068276.2:215 319 682

77

Retroposon (SVA)

SNHG31

Intron

2

CP068276.2:215 369 785

171

SINE (Alu)

SNHG31

Intron

2

CP068276.2:216 174 633

132

SINE (Alu)

LOC102724861

Intron

1

CP068276.2:217 798 533

316

SINE (Alu)

DIRC3-AS1

Intron

1

CP068276.2:218 962 523

296

SINE (Alu)

USP37

Intron

2

CP068276.2:220 421 760

313

SINE (Alu)

LOC105373890

Intron

1

CP068276.2:220 966 361

322

SINE (Alu)

LOC105373893

Intron

2

CP068276.2:223 381 036

2 476

Retroposon (SVA)

ACSL3

Intron

2

CP068276.2:223 415 723

315

SINE (Alu)

ACSL3

Intron

2

CP068276.2:226 370 859

317

SINE (Alu)

LOC105373914

Intron

1

CP068276.2:227 641 518

328

SINE (Alu)

COL4A4

Intron

2

CP068276.2:233 687 447

149

SINE (Alu)

INPP5D

Intron

1

CP068276.2:234 212 789

50

Retroposon (SVA)

UGT1A8

Intron

2

CP068276.2:240 512 571

311

SINE (Alu)

NDUFA10

Intron

2

CP068277.2:7 919 418

309

SINE (Alu)

RERE

Intron

2

CP068277.2:7 974 800

316

SINE (Alu)

RERE

Intron

2

CP068277.2:17 172 541

320

SINE (Alu)

PADI4

Intron

2

CP068277.2:20 992 774

316

SINE (Alu)

EIF4G3

Intron

2

CP068277.2:28 237 649

314

SINE (Alu)

PHACTR4

Intron

2

CP068277.2:28 260 987

318

SINE (Alu)

PHACTR4

Intron

2

CP068277.2:28 413 736

333

SINE (Alu)

TRNAU1AP

Intron

1

CP068277.2:28 942 968

324

SINE (Alu)

EPB41

Intron

2

CP068277.2:38 352 287

74

SINE (Alu)

LOC105378657

Intron

2

CP068277.2:42 148 108

314

SINE (Alu)

FOXJ3

Intron

2

CP068277.2:43 262 333

324

SINE (Alu)

SZT2

Intron

2

CP068277.2:45 201 578

325

SINE (Alu)

MUTYH

Intron

2

CP068277.2:46 090 578

333

SINE (Alu)

LURAP1

Intron

2

CP068277.2:51 393 792

324

SINE (Alu)

EPS15

Intron

2

CP068277.2:56 248 449

3 850

LINE (L1)

LOC124905710

Intron

2

CP068277.2:56 301 172

315

SINE (Alu)

LOC124905710

Intron

2

CP068277.2:59 284 566

318

SINE (Alu)

FGGY

Intron

2

CP068277.2:64 759 239

331

SINE (Alu)

JAK1

Intron

2

CP068277.2:69 438 644

311

SINE (Alu)

LOC105378789

Intron

2

CP068277.2:69 472 604

318

SINE (Alu)

LRRC7

Intron

2

CP068277.2:74 568 854

3 706

LINE (L1)

CRYZ

Intron

2

CP068277.2:81 683 953

323

SINE (Alu)

ADGRL2

Intron

2

CP068277.2:85 780 971

323

SINE (Alu)

COL24A1

Intron

2

CP068277.2:88 493 473

313

SINE (Alu)

PKN2-AS1

Intron

2

CP068277.2:89 748 218

268

SINE (Alu)

LRRC8D

Intron

2

CP068277.2:97 099 968

326

SINE (Alu)

DPYD-AS1

Intron

2

CP068277.2:99 773 243

143

SINE (Alu)

LOC124904230

Intron

1

CP068277.2:99 773 253

143

SINE (Alu)

LOC124904230

Intron

1

CP068277.2:101 153 840

316

SINE (Alu)

LOC102723784

Intron

2

CP068277.2:107 637 360

308

SINE (Alu)

VAV3

Intron

2

CP068277.2:109 210 162

78

Retroposon (SVA)

ELAPOR1

Intron

2

CP068277.2:109 725 939

288

SINE (Alu)

GSTM5

Intron

1

CP068277.2:111 310 370

61

LINE (L1)

CHIA

Intron

2

CP068277.2:111 595 921

319

SINE (Alu)

RAP1A

Intron

2

CP068277.2:114 512 654

311

SINE (Alu)

TRIM33

Intron

2

CP068277.2:114 670 214

303

SINE (Alu)

DENND2C

Intron

2

CP068277.2:117 439 865

79

Retroposon (SVA)

MAN1A2

Intron

2

CP068277.2:120 472 299

321

SINE (Alu)

NBPF8

Intron

2

CP068277.2:147 616 749

173

LINE (L1)

FMO5

Intron

2

CP068277.2:147 621 768

315

SINE (Alu)

FMO5

Intron

2

CP068277.2:149 352 606

291

SINE (Alu)

ANP32E

Intron

2

CP068277.2:149 536 325

328

SINE (Alu)

RPRD2

Intron

2

CP068277.2:152 298 029

256

LINE (L1)

SPRR2G

Intron

2

CP068277.2:155 092 710

319

SINE (Alu)

ARHGEF2

Intron

2

CP068277.2:160 560 541

375

Retroposon (SVA)

TRE-TTC4-2

Promoter

1

CP068277.2:161 213 049

329

SINE (Alu)

ATF6

Intron

2

CP068277.2:165 036 498

272

SINE (Alu)

ALDH9A1

Intron

2

CP068277.2:167 240 949

286

SINE (Alu)

DCAF6

Intron

2

CP068277.2:168 612 295

126

LINE (L1)

NME7

Intron

1

CP068277.2:173 333 814

324

SINE (Alu)

RC3H1

Intron

2

CP068277.2:181 662 904

47

Retroposon (SVA)

LINC01344

Intron

1

CP068277.2:184 970 319

316

SINE (Alu)

LOC107985239

Intron

2

CP068277.2:188 371 799

328

SINE (Alu)

LINC01035

Intron

1

CP068277.2:203 640 459

325

SINE (Alu)

PLEKHA6

Intron

1

CP068277.2:209 973 608

334

SINE (Alu)

LOC105372901

Intron

2

CP068277.2:209 987 115

121

SINE (Alu)

LOC105372901

Intron

2

CP068277.2:210 357 652

118

Retroposon (SVA)

KCNH1

Intron

2

CP068277.2:211 543 946

1 484

Retroposon (SVA)

PPP2R5A

Intron

1

CP068277.2:211 713 734

83

SINE (Alu)

LINC02771

Intron

2

CP068277.2:211 837 439

316

SINE (Alu)

ATF3

Intron

2

CP068277.2:214 261 398

53

LTR (ERVL)

KCNK2

Intron

2

CP068277.2:216 822 048

302

SINE (Alu)

GPATCH2

Intron

2

CP068277.2:216 981 237

328

SINE (Alu)

SPATA17

Intron

2

CP068277.2:216 985 245

311

SINE (Alu)

SPATA17

Intron

2

CP068277.2:217 249 968

6 098

LINE (L1)

LOC105372922

Intron

2

CP068277.2:218 986 191

316

SINE (Alu)

LOC105372926

Intron

2

CP068277.2:220 020 709

317

SINE (Alu)

MTARC2

Intron

2

CP068277.2:221 722 308

173

Retroposon (SVA)

LOC124905750

Intron

1

CP068277.2:221 722 389

175

Retroposon (SVA)

LOC124905750

Intron

1

CP068277.2:221 931 096

331

SINE (Alu)

AIDA

Intron

2

CP068277.2:222 913 578

328

SINE (Alu)

CAPN2

Intron

2

CP068277.2:223 310 757

85

SINE (Alu)

FBXO28

Intron

2

CP068277.2:226 463 590

323

SINE (Alu)

CDC42BPA

Intron

2

CP068277.2:226 503 108

142

SINE (Alu)

CDC42BPA

Intron

2

CP068277.2:230 329 881

304

SINE (Alu)

TTC13

Intron

2

CP068277.2:234 701 085

85

Retroposon (SVA)

ARID4B

Intron

2

CP068277.2:235 287 889

334

SINE (Alu)

LOC105373215

Promoter

2

CP068277.2:235 831 713

323

SINE (Alu)

EDARADD

Intron

2

CP068277.2:236 817 294

313

SINE (Alu)

RYR2

Intron

2

CP068277.2:237 215 622

307

SINE (Alu)

RYR2

Intron

2

CP068277.2:239 055 414

281

LINE (L1)

CHRM3

Intron

2

CP068277.2:240 478 980

330

SINE (Alu)

RGS7

Intron

2

CP068277.2:242 577 599

317

SINE (Alu)

CEP170

Intron

2

CP068277.2:245 785 375

137

Retroposon (SVA)

SMYD3

Intron

2

CP068277.2:246 075 796

265

SINE (Alu)

CNST

Intron

2

2.2 Class II Elements

2.2.1 Distribution

A) Unique class II TE insertions occurrences on the genome. B) Gene annotations of class II TE insertions on the genome. A single TE may be annotated more than once.

  1. Unique class II TE insertions occurrences on the genome. B) Gene annotations of class II TE insertions on the genome. A single TE may be annotated more than once.

2.2.2 Class II TEs on gene sequences

Click to show table with 5 rows.

Position

Length

Type

Gene

Annotation

Occurrences

CP068258.2:55 000 772

56

DNA (hAT)

TSHZ2

Intron

2

CP068268.2:29 625 326

54

DNA (TcMar)

SVIL

Intron

2

CP068275.2:10 649 719

82

DNA (hAT)

ATP2B2

Intron

1

CP068277.2:168 313 067

106

DNA (hAT)

LINC00970

Intron

2

CP068277.2:239 923 757

176

DNA (hAT)

GREM2

Intron

2

3 TE Deletions

It is common to find deletions whose coordinates match those of a TE sequence in the reference genome. This section presents them.

  • 1 462 TE deletions have been found, adding up to 2 787 occurrences among cases.
  • These deletions have a mean prevalence per sample of 1.9 ± 0.29 (median of 2).
  • The deletion length is in the range of 305-331 bp for 50% of them (Q2-Q3, both included), and the maximum length found was 8 502, for a deleted ERVK sequence.

3.1 Allele frequency

  • The mean AF for deletions is 0.79 ± 0.25 (median of 0.75).
  • With 729 (729 of which has passed the stringent filtering) deletions appearing in a homozygous state in all patients (Fig. 7). On the other hand, 26 deletions were genotyped as 0/0 on all cases, and have not been included in the rest of this section.
Allele frequency is shown for TE deletions for each chromosome. Each dot marks a different deletion.

Allele frequency is shown for TE deletions for each chromosome. Each dot marks a different deletion.

4 Enrichment analysis

This section shows the result of enrichment analysis on the genes affected with TE insertions.

4.1 Gene Ontology

4.1.0.1 Annotation group: MF (Molecular Function)

Barplot for enriched categories. Values on top have lower p values.

Barplot for enriched categories. Values on top have lower p values.

The category with lowest p value is Pyrin domain binding (3.016674e-11), and the highest (among the lowest 10) is cytoskeletal motor activity (0.00730683). The ratio is 242214778.11, i.e., they differ in 8 orders of magnitude.

Click to show/hide table with 100 rows for categories with the lowest p value.

ID

Description

GeneRatio

BgRatio

pvalue

p.adjust

qvalue

Count

GeneRatioCalc

GO:0032090

Pyrin domain binding

10/746

11/20758

3.608e-14

3.017e-11

2.742e-11

10

0.0134

GO:0032395

MHC class II receptor activity

16/746

67/20758

1.34e-09

5.602e-07

5.092e-07

16

0.02145

GO:0042609

CD4 receptor binding

7/746

13/20758

1.069e-07

2.98e-05

2.709e-05

7

0.009383

GO:0023026

MHC class II protein complex binding

17/746

109/20758

3.443e-07

7.195e-05

6.541e-05

17

0.02279

GO:0023023

MHC protein complex binding

17/746

126/20758

2.758e-06

0.0004518

0.0004107

17

0.02279

GO:0046703

natural killer cell lectin-like receptor binding

8/746

27/20758

3.242e-06

0.0004518

0.0004107

8

0.01072

GO:0015020

glucuronosyltransferase activity

8/746

36/20758

3.319e-05

0.003963

0.003603

8

0.01072

GO:0042605

peptide antigen binding

16/746

139/20758

4.074e-05

0.004257

0.00387

16

0.02145

GO:0005516

calmodulin binding

20/746

210/20758

7.441e-05

0.006912

0.006284

20

0.02681

GO:0003774

cytoskeletal motor activity

14/746

118/20758

8.74e-05

0.007307

0.006643

14

0.01877

GO:0015085

calcium ion transmembrane transporter activity

15/746

142/20758

0.000186

0.01414

0.01285

15

0.02011

GO:0005216

ion channel activity

33/746

480/20758

0.0003069

0.02105

0.01913

33

0.04424

GO:0051959

dynein light intermediate chain binding

6/746

27/20758

0.0003273

0.02105

0.01913

6

0.008043

GO:0008569

minus-end-directed microtubule motor activity

5/746

19/20758

0.0004519

0.02698

0.02453

5

0.006702

GO:0008194

UDP-glycosyltransferase activity

15/746

157/20758

0.0005516

0.03074

0.02795

15

0.02011

GO:0005262

calcium channel activity

13/746

126/20758

0.0006141

0.03209

0.02917

13

0.01743

GO:0005001

transmembrane receptor protein tyrosine phosphatase activity

5/746

21/20758

0.000745

0.0346

0.03146

5

0.006702

GO:0019198

transmembrane receptor protein phosphatase activity

5/746

21/20758

0.000745

0.0346

0.03146

5

0.006702

GO:0030165

PDZ domain binding

10/746

89/20758

0.00133

0.05596

0.05087

10

0.0134

GO:0140303

intramembrane lipid transporter activity

7/746

47/20758

0.001353

0.05596

0.05087

7

0.009383

GO:0042608

T cell receptor binding

6/746

35/20758

0.001406

0.05596

0.05087

6

0.008043

GO:0005096

GTPase activator activity

22/746

304/20758

0.001552

0.05899

0.05363

22

0.02949

GO:0004029

aldehyde dehydrogenase (NAD+) activity

4/746

15/20758

0.001645

0.05945

0.05405

4

0.005362

GO:0042277

peptide binding

30/746

468/20758

0.001707

0.05945

0.05405

30

0.04021

GO:0008559

ABC-type xenobiotic transporter activity

4/746

16/20758

0.002132

0.06758

0.06143

4

0.005362

GO:0022836

gated channel activity

25/746

372/20758

0.002146

0.06758

0.06143

25

0.03351

GO:0030247

polysaccharide binding

6/746

38/20758

0.002182

0.06758

0.06143

6

0.008043

GO:0004030

aldehyde dehydrogenase [NAD(P)+] activity

4/746

17/20758

0.002709

0.07549

0.06863

4

0.005362

GO:0015385

sodium:proton antiporter activity

4/746

17/20758

0.002709

0.07549

0.06863

4

0.005362

GO:0140327

flippase activity

4/746

17/20758

0.002709

0.07549

0.06863

4

0.005362

GO:0045499

chemorepellent activity

5/746

29/20758

0.003429

0.09247

0.08407

5

0.006702

GO:0016758

hexosyltransferase activity

16/746

210/20758

0.003922

0.1025

0.09315

16

0.02145

GO:0004675

transmembrane receptor protein serine/threonine kinase activity

4/746

19/20758

0.004167

0.1038

0.0944

4

0.005362

GO:0003777

microtubule motor activity

8/746

72/20758

0.004223

0.1038

0.0944

8

0.01072

GO:0004791

thioredoxin-disulfide reductase activity

3/746

10/20758

0.004591

0.1097

0.09968

3

0.004021

GO:0042578

phosphoric ester hydrolase activity

25/746

396/20758

0.004829

0.1121

0.1019

25

0.03351

GO:0052745

inositol phosphate phosphatase activity

4/746

20/20758

0.005063

0.1144

0.104

4

0.005362

GO:0046873

metal ion transmembrane transporter activity

28/746

466/20758

0.005816

0.128

0.1163

28

0.03753

GO:0005154

epidermal growth factor receptor binding

5/746

33/20758

0.00609

0.1306

0.1187

5

0.006702

GO:0003779

actin binding

28/746

471/20758

0.006692

0.1342

0.122

28

0.03753

GO:0140828

metal cation:monoatomic cation antiporter activity

5/746

34/20758

0.006933

0.1342

0.122

5

0.006702

GO:0022839

ion gated channel activity

6/746

48/20758

0.007169

0.1342

0.122

6

0.008043

GO:0005229

intracellular calcium activated chloride channel activity

4/746

22/20758

0.007221

0.1342

0.122

4

0.005362

GO:0051139

metal cation:proton antiporter activity

4/746

22/20758

0.007221

0.1342

0.122

4

0.005362

GO:0061778

intracellular chloride channel activity

4/746

22/20758

0.007221

0.1342

0.122

4

0.005362

GO:0005085

guanyl-nucleotide exchange factor activity

17/746

245/20758

0.007592

0.138

0.1254

17

0.02279

GO:0019211

phosphatase activator activity

4/746

23/20758

0.008497

0.1511

0.1374

4

0.005362

GO:0046030

inositol trisphosphate phosphatase activity

3/746

13/20758

0.0101

0.169

0.1536

3

0.004021

GO:0047134

protein-disulfide reductase (NAD(P)) activity

3/746

13/20758

0.0101

0.169

0.1536

3

0.004021

GO:0005548

phospholipid transporter activity

7/746

67/20758

0.01011

0.169

0.1536

7

0.009383

GO:0005261

cation channel activity

22/746

360/20758

0.01124

0.1835

0.1668

22

0.02949

GO:0017124

SH3 domain binding

11/746

139/20758

0.01173

0.1835

0.1668

11

0.01475

GO:0005200

structural constituent of cytoskeleton

10/746

121/20758

0.01196

0.1835

0.1668

10

0.0134

GO:0000146

microfilament motor activity

5/746

39/20758

0.01239

0.1835

0.1668

5

0.006702

GO:0052866

phosphatidylinositol phosphate phosphatase activity

5/746

39/20758

0.01239

0.1835

0.1668

5

0.006702

GO:0070679

inositol 1,4,5 trisphosphate binding

3/746

14/20758

0.01251

0.1835

0.1668

3

0.004021

GO:0140333

glycerophospholipid flippase activity

3/746

14/20758

0.01251

0.1835

0.1668

3

0.004021

GO:0008381

mechanosensitive ion channel activity

4/746

26/20758

0.01318

0.19

0.1727

4

0.005362

GO:0048487

beta-tubulin binding

5/746

41/20758

0.01521

0.2087

0.1897

5

0.006702

GO:0016668

oxidoreductase activity, acting on a sulfur group of donors, NAD(P) as acceptor

3/746

15/20758

0.01523

0.2087

0.1897

3

0.004021

GO:0047555

3',5'-cyclic-GMP phosphodiesterase activity

3/746

15/20758

0.01523

0.2087

0.1897

3

0.004021

GO:0030374

nuclear receptor coactivator activity

6/746

57/20758

0.01618

0.2182

0.1984

6

0.008043

GO:0005080

protein kinase C binding

6/746

58/20758

0.01752

0.2311

0.2101

6

0.008043

GO:0015386

potassium:proton antiporter activity

3/746

16/20758

0.01825

0.2311

0.2101

3

0.004021

GO:0106019

phosphatidylinositol-4,5-bisphosphate phosphatase activity

3/746

16/20758

0.01825

0.2311

0.2101

3

0.004021

GO:0140328

floppase activity

3/746

16/20758

0.01825

0.2311

0.2101

3

0.004021

GO:0034593

phosphatidylinositol bisphosphate phosphatase activity

4/746

29/20758

0.01924

0.2366

0.2151

4

0.005362

GO:0140326

ATPase-coupled intramembrane lipid transporter activity

4/746

29/20758

0.01924

0.2366

0.2151

4

0.005362

GO:0042562

hormone binding

8/746

94/20758

0.01986

0.2376

0.216

8

0.01072

GO:0044325

transmembrane transporter binding

10/746

131/20758

0.0199

0.2376

0.216

10

0.0134

GO:0015298

solute:cation antiporter activity

5/746

45/20758

0.02207

0.2599

0.2363

5

0.006702

GO:0015297

antiporter activity

8/746

97/20758

0.02351

0.2723

0.2475

8

0.01072

GO:0016791

phosphatase activity

18/746

300/20758

0.02407

0.2723

0.2475

18

0.02413

GO:0005217

intracellular ligand-gated ion channel activity

4/746

31/20758

0.0241

0.2723

0.2475

4

0.005362

GO:0015278

calcium-release channel activity

3/746

18/20758

0.02522

0.273

0.2481

3

0.004021

GO:0017128

phospholipid scramblase activity

3/746

18/20758

0.02522

0.273

0.2481

3

0.004021

GO:0030275

LRR domain binding

3/746

18/20758

0.02522

0.273

0.2481

3

0.004021

GO:0005319

lipid transporter activity

12/746

176/20758

0.02547

0.273

0.2481

12

0.01609

GO:0016903

oxidoreductase activity, acting on the aldehyde or oxo group of donors

5/746

47/20758

0.02615

0.2767

0.2515

5

0.006702

GO:0015144

carbohydrate transmembrane transporter activity

5/746

48/20758

0.02835

0.2848

0.2589

5

0.006702

GO:0042169

SH2 domain binding

5/746

48/20758

0.02835

0.2848

0.2589

5

0.006702

GO:0004115

3',5'-cyclic-AMP phosphodiesterase activity

3/746

19/20758

0.02916

0.2848

0.2589

3

0.004021

GO:0030246

carbohydrate binding

18/746

307/20758

0.02937

0.2848

0.2589

18

0.02413

GO:0005451

monovalent cation:proton antiporter activity

4/746

33/20758

0.02964

0.2848

0.2589

4

0.005362

GO:0015299

solute:proton antiporter activity

4/746

33/20758

0.02964

0.2848

0.2589

4

0.005362

GO:0030296

protein tyrosine kinase activator activity

4/746

33/20758

0.02964

0.2848

0.2589

4

0.005362

GO:0042910

xenobiotic transmembrane transporter activity

4/746

33/20758

0.02964

0.2848

0.2589

4

0.005362

GO:0016798

hydrolase activity, acting on glycosyl bonds

10/746

142/20758

0.03246

0.307

0.2791

10

0.0134

GO:0001972

retinoic acid binding

3/746

20/20758

0.03342

0.307

0.2791

3

0.004021

GO:0004653

polypeptide N-acetylgalactosaminyltransferase activity

3/746

20/20758

0.03342

0.307

0.2791

3

0.004021

GO:0016408

C-acyltransferase activity

3/746

20/20758

0.03342

0.307

0.2791

3

0.004021

GO:0045296

cadherin binding

20/746

357/20758

0.03416

0.3104

0.2822

20

0.02681

GO:0016813

hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amidines

3/746

21/20758

0.03797

0.3339

0.3035

3

0.004021

GO:0019200

carbohydrate kinase activity

3/746

21/20758

0.03797

0.3339

0.3035

3

0.004021

GO:0022821

solute:potassium antiporter activity

3/746

21/20758

0.03797

0.3339

0.3035

3

0.004021

GO:0050661

NADP binding

5/746

52/20758

0.03834

0.3339

0.3035

5

0.006702

GO:0000993

RNA polymerase II complex binding

4/746

36/20758

0.03924

0.3382

0.3075

4

0.005362

GO:0140359

ABC-type transporter activity

6/746

70/20758

0.03973

0.3389

0.3081

6

0.008043

GO:0008376

acetylgalactosaminyltransferase activity

4/746

37/20758

0.04279

0.3545

0.3223

4

0.005362

GO:0045505

dynein intermediate chain binding

4/746

37/20758

0.04279

0.3545

0.3223

4

0.005362

[1] “”


These plots show connections among categories:

Enrichment map. Categories are connected by genes in common. Dot size indicates number of genes, dot color indicates adjusted _p_ value.

Enrichment map. Categories are connected by genes in common. Dot size indicates number of genes, dot color indicates adjusted p value.

Gene-concept network. Categories (brown dots) are linked by genes in common (gray dots). The size of category dots indicates gene count.

Gene-concept network. Categories (brown dots) are linked by genes in common (gray dots). The size of category dots indicates gene count.

4.1.0.2 Annotation group: BP (Biological Process)

Barplot for enriched categories. Values on top have lower p values.

Barplot for enriched categories. Values on top have lower p values.

The category with lowest p value is regulation of T cell mediated immune response to tumor cell (6.891309e-08), and the highest (among the lowest 10) is positive regulation of response to tumor cell (9.16655e-06). The ratio is 133.0161, i.e., they differ in 2 orders of magnitude.

Click to show/hide table with 100 rows for categories with the lowest p value.

ID

Description

GeneRatio

BgRatio

pvalue

p.adjust

qvalue

Count

GeneRatioCalc

GO:0002840

regulation of T cell mediated immune response to tumor cell

10/729

16/21069

1.535e-11

6.891e-08

6.334e-08

10

0.01372

GO:0002842

positive regulation of T cell mediated immune response to tumor cell

9/729

13/21069

4.276e-11

9.595e-08

8.819e-08

9

0.01235

GO:0050689

negative regulation of defense response to virus by host

8/729

10/21069

8.373e-11

1.253e-07

1.151e-07

8

0.01097

GO:0002469

myeloid dendritic cell antigen processing and presentation

9/729

17/21069

1.283e-09

1.44e-06

1.323e-06

9

0.01235

GO:0002424

T cell mediated immune response to tumor cell

10/729

24/21069

2.924e-09

2.624e-06

2.412e-06

10

0.01372

GO:0002837

regulation of immune response to tumor cell

10/729

27/21069

1.145e-08

7.338e-06

6.745e-06

10

0.01372

GO:0045655

regulation of monocyte differentiation

10/729

27/21069

1.145e-08

7.338e-06

6.745e-06

10

0.01372

GO:0030224

monocyte differentiation

12/729

43/21069

1.541e-08

8.604e-06

7.908e-06

12

0.01646

GO:0002834

regulation of response to tumor cell

10/729

28/21069

1.725e-08

8.604e-06

7.908e-06

10

0.01372

GO:0002836

positive regulation of response to tumor cell

9/729

22/21069

2.247e-08

9.167e-06

8.426e-06

9

0.01235

GO:0002839

positive regulation of immune response to tumor cell

9/729

22/21069

2.247e-08

9.167e-06

8.426e-06

9

0.01235

GO:0002429

immune response-activating cell surface receptor signaling pathway

36/729

390/21069

9.979e-08

3.188e-05

2.93e-05

36

0.04938

GO:0002757

immune response-activating signal transduction

36/729

390/21069

9.979e-08

3.188e-05

2.93e-05

36

0.04938

GO:0046598

positive regulation of viral entry into host cell

8/729

19/21069

1.066e-07

3.188e-05

2.93e-05

8

0.01097

GO:0075294

positive regulation by symbiont of entry into host

8/729

19/21069

1.066e-07

3.188e-05

2.93e-05

8

0.01097

GO:0043280

positive regulation of cysteine-type endopeptidase activity involved in apoptotic process

20/729

147/21069

1.778e-07

4.928e-05

4.529e-05

20

0.02743

GO:0050687

negative regulation of defense response to virus

10/729

35/21069

1.938e-07

4.928e-05

4.529e-05

10

0.01372

GO:0002399

MHC class II protein complex assembly

16/729

97/21069

2.086e-07

4.928e-05

4.529e-05

16

0.02195

GO:0002503

peptide antigen assembly with MHC class II protein complex

16/729

97/21069

2.086e-07

4.928e-05

4.529e-05

16

0.02195

GO:0045657

positive regulation of monocyte differentiation

7/729

15/21069

2.913e-07

6.537e-05

6.009e-05

7

0.009602

GO:0010803

regulation of tumor necrosis factor-mediated signaling pathway

14/729

78/21069

4.1e-07

8.761e-05

8.053e-05

14

0.0192

GO:0002468

dendritic cell antigen processing and presentation

9/729

30/21069

5.039e-07

9.874e-05

9.076e-05

9

0.01235

GO:0002495

antigen processing and presentation of peptide antigen via MHC class II

17/729

116/21069

5.06e-07

9.874e-05

9.076e-05

17

0.02332

GO:0002396

MHC protein complex assembly

16/729

105/21069

6.368e-07

0.0001114

0.0001024

16

0.02195

GO:0002501

peptide antigen assembly with MHC protein complex

16/729

105/21069

6.368e-07

0.0001114

0.0001024

16

0.02195

GO:0002504

antigen processing and presentation of peptide or polysaccharide antigen via MHC class II

17/729

118/21069

6.485e-07

0.0001114

0.0001024

17

0.02332

GO:0002347

response to tumor cell

12/729

59/21069

6.768e-07

0.0001114

0.0001024

12

0.01646

GO:0050852

T cell receptor signaling pathway

22/729

189/21069

6.949e-07

0.0001114

0.0001024

22

0.03018

GO:0052695

cellular glucuronidation

8/729

24/21069

8.891e-07

0.0001376

0.0001265

8

0.01097

GO:0010804

negative regulation of tumor necrosis factor-mediated signaling pathway

10/729

41/21069

9.806e-07

0.0001467

0.0001348

10

0.01372

GO:2001056

positive regulation of cysteine-type endopeptidase activity

20/729

166/21069

1.284e-06

0.0001859

0.0001709

20

0.02743

GO:0019886

antigen processing and presentation of exogenous peptide antigen via MHC class II

16/729

111/21069

1.368e-06

0.0001919

0.0001764

16

0.02195

GO:0002418

immune response to tumor cell

10/729

43/21069

1.575e-06

0.0002143

0.0001969

10

0.01372

GO:0019835

cytolysis

9/729

37/21069

3.526e-06

0.0004654

0.0004278

9

0.01235

GO:0002491

antigen processing and presentation of endogenous peptide antigen via MHC class II

6/729

14/21069

3.98e-06

0.0005103

0.0004691

6

0.00823

GO:0006063

uronic acid metabolic process

8/729

29/21069

4.45e-06

0.0005256

0.0004831

8

0.01097

GO:0019585

glucuronate metabolic process

8/729

29/21069

4.45e-06

0.0005256

0.0004831

8

0.01097

GO:1903902

positive regulation of viral life cycle

8/729

29/21069

4.45e-06

0.0005256

0.0004831

8

0.01097

GO:0002253

activation of immune response

38/729

500/21069

5.436e-06

0.0006256

0.000575

38

0.05213

GO:0002768

immune response-regulating cell surface receptor signaling pathway

36/729

470/21069

8.063e-06

0.0009047

0.0008315

36

0.04938

GO:0021756

striatum development

7/729

24/21069

1.193e-05

0.001306

0.0012

7

0.009602

GO:0050851

antigen receptor-mediated signaling pathway

26/729

297/21069

1.519e-05

0.001623

0.001492

26

0.03567

GO:0043281

regulation of cysteine-type endopeptidase activity involved in apoptotic process

22/729

231/21069

1.869e-05

0.001913

0.001758

22

0.03018

GO:0042093

T-helper cell differentiation

12/729

80/21069

1.875e-05

0.001913

0.001758

12

0.01646

GO:0002294

CD4-positive, alpha-beta T cell differentiation involved in immune response

12/729

82/21069

2.421e-05

0.002415

0.002219

12

0.01646

GO:0048524

positive regulation of viral process

11/729

70/21069

2.658e-05

0.002564

0.002357

11

0.01509

GO:0002287

alpha-beta T cell activation involved in immune response

12/729

83/21069

2.742e-05

0.002564

0.002357

12

0.01646

GO:0002293

alpha-beta T cell differentiation involved in immune response

12/729

83/21069

2.742e-05

0.002564

0.002357

12

0.01646

GO:0032829

regulation of CD4-positive, CD25-positive, alpha-beta regulatory T cell differentiation

6/729

19/21069

3.1e-05

0.002758

0.002535

6

0.00823

GO:0032831

positive regulation of CD4-positive, CD25-positive, alpha-beta regulatory T cell differentiation

6/729

19/21069

3.1e-05

0.002758

0.002535

6

0.00823

GO:0010950

positive regulation of endopeptidase activity

20/729

205/21069

3.134e-05

0.002758

0.002535

20

0.02743

GO:0002381

immunoglobulin production involved in immunoglobulin-mediated immune response

17/729

157/21069

3.246e-05

0.002802

0.002575

17

0.02332

GO:0043382

positive regulation of memory T cell differentiation

6/729

21/21069

5.843e-05

0.004867

0.004474

6

0.00823

GO:0021544

subpallium development

7/729

30/21069

5.856e-05

0.004867

0.004474

7

0.009602

GO:0019884

antigen processing and presentation of exogenous antigen

17/729

165/21069

6.118e-05

0.004992

0.004588

17

0.02332

GO:0001960

negative regulation of cytokine-mediated signaling pathway

13/729

105/21069

6.832e-05

0.005373

0.004939

13

0.01783

GO:0046629

gamma-delta T cell activation

8/729

41/21069

6.863e-05

0.005373

0.004939

8

0.01097

GO:0002292

T cell differentiation involved in immune response

12/729

91/21069

6.944e-05

0.005373

0.004939

12

0.01646

GO:0002361

CD4-positive, CD25-positive, alpha-beta regulatory T cell differentiation

6/729

22/21069

7.8e-05

0.005934

0.005454

6

0.00823

GO:0051262

protein tetramerization

13/729

108/21069

9.166e-05

0.006856

0.006302

13

0.01783

GO:0044088

regulation of vacuole organization

10/729

67/21069

9.644e-05

0.007064

0.006493

10

0.01372

GO:0002478

antigen processing and presentation of exogenous peptide antigen

16/729

155/21069

9.759e-05

0.007064

0.006493

16

0.02195

GO:0060761

negative regulation of response to cytokine stimulus

13/729

110/21069

0.0001108

0.007893

0.007255

13

0.01783

GO:0010952

positive regulation of peptidase activity

20/729

226/21069

0.0001228

0.00861

0.007914

20

0.02743

GO:0043380

regulation of memory T cell differentiation

6/729

24/21069

0.0001326

0.009121

0.008383

6

0.00823

GO:0007018

microtubule-based movement

31/729

436/21069

0.0001341

0.009121

0.008383

31

0.04252

GO:0043379

memory T cell differentiation

6/729

25/21069

0.0001694

0.01135

0.01043

6

0.00823

GO:0043367

CD4-positive, alpha-beta T cell differentiation

12/729

100/21069

0.0001742

0.0115

0.01057

12

0.01646

GO:2000516

positive regulation of CD4-positive, alpha-beta T cell activation

9/729

59/21069

0.0001806

0.01175

0.0108

9

0.01235

GO:0006892

post-Golgi vesicle-mediated transport

13/729

116/21069

0.0001903

0.01208

0.0111

13

0.01783

GO:2000116

regulation of cysteine-type endopeptidase activity

22/729

270/21069

0.0001911

0.01208

0.0111

22

0.03018

GO:0009595

detection of biotic stimulus

9/729

60/21069

0.000206

0.01284

0.0118

9

0.01235

GO:0035710

CD4-positive, alpha-beta T cell activation

15/729

149/21069

0.0002107

0.01296

0.01191

15

0.02058

GO:0090715

immunological memory formation process

6/729

26/21069

0.0002139

0.01297

0.01192

6

0.00823

GO:0098581

detection of external biotic stimulus

8/729

48/21069

0.000219

0.0131

0.01205

8

0.01097

GO:2000785

regulation of autophagosome assembly

9/729

61/21069

0.0002343

0.01384

0.01272

9

0.01235

GO:0098742

cell-cell adhesion via plasma-membrane adhesion molecules

23/729

293/21069

0.0002379

0.01387

0.01275

23

0.03155

GO:0032088

negative regulation of NF-kappaB transcription factor activity

13/729

121/21069

0.0002898

0.01668

0.01533

13

0.01783

GO:0098543

detection of other organism

7/729

39/21069

0.0003376

0.01914

0.0176

7

0.009602

GO:0030900

forebrain development

29/729

419/21069

0.0003413

0.01914

0.0176

29

0.03978

GO:0022409

positive regulation of cell-cell adhesion

32/729

481/21069

0.000347

0.01922

0.01767

32

0.0439

GO:0033209

tumor necrosis factor-mediated signaling pathway

14/729

141/21069

0.0003905

0.02137

0.01965

14

0.0192

GO:0021537

telencephalon development

22/729

286/21069

0.0004257

0.0225

0.02068

22

0.03018

GO:0007269

neurotransmitter secretion

15/729

159/21069

0.0004262

0.0225

0.02068

15

0.02058

GO:0099643

signal release from synapse

15/729

159/21069

0.0004262

0.0225

0.02068

15

0.02058

GO:0010975

regulation of neuron projection development

31/729

468/21069

0.0004592

0.02396

0.02203

31

0.04252

GO:0045862

positive regulation of proteolysis

29/729

428/21069

0.000482

0.02487

0.02286

29

0.03978

GO:0090713

immunological memory process

6/729

30/21069

0.0004903

0.025

0.02298

6

0.00823

GO:0032732

positive regulation of interleukin-1 production

12/729

112/21069

0.0005029

0.02536

0.02331

12

0.01646

GO:0042088

T-helper 1 type immune response

8/729

55/21069

0.0005713

0.028

0.02574

8

0.01097

GO:0050691

regulation of defense response to virus by host

8/729

55/21069

0.0005713

0.028

0.02574

8

0.01097

GO:0032731

positive regulation of interleukin-1 beta production

11/729

98/21069

0.000574

0.028

0.02574

11

0.01509

GO:0001959

regulation of cytokine-mediated signaling pathway

17/729

201/21069

0.0006492

0.031

0.02849

17

0.02332

GO:0048002

antigen processing and presentation of peptide antigen

17/729

201/21069

0.0006492

0.031

0.02849

17

0.02332

GO:0035774

positive regulation of insulin secretion involved in cellular response to glucose stimulus

6/729

32/21069

0.0007055

0.03333

0.03064

6

0.00823

GO:0046632

alpha-beta T cell differentiation

13/729

133/21069

0.0007229

0.03342

0.03072

13

0.01783

GO:0007157

heterophilic cell-cell adhesion via plasma membrane cell adhesion molecules

8/729

57/21069

0.0007297

0.03342

0.03072

8

0.01097

GO:0097479

synaptic vesicle localization

8/729

57/21069

0.0007297

0.03342

0.03072

8

0.01097

GO:0098911

regulation of ventricular cardiac muscle cell action potential

4/729

13/21069

0.0007917

0.03589

0.03299

4

0.005487

GO:0050870

positive regulation of T cell activation

26/729

380/21069

0.0008026

0.03602

0.03311

26

0.03567

[1] “”


These plots show connections among categories:

Enrichment map. Categories are connected by genes in common. Dot size indicates number of genes, dot color indicates adjusted _p_ value.

Enrichment map. Categories are connected by genes in common. Dot size indicates number of genes, dot color indicates adjusted p value.

Gene-concept network. Categories (brown dots) are linked by genes in common (gray dots). The size of category dots indicates gene count.

Gene-concept network. Categories (brown dots) are linked by genes in common (gray dots). The size of category dots indicates gene count.

4.1.0.3 Annotation group: CC (Cellular Component)

Barplot for enriched categories. Values on top have lower p values.

Barplot for enriched categories. Values on top have lower p values.

The category with lowest p value is clathrin-coated endocytic vesicle membrane (5.820535e-05), and the highest (among the lowest 10) is clathrin-coated vesicle membrane (0.0009372613). The ratio is 16.10267, i.e., they differ in 1 orders of magnitude.

Click to show/hide table with 100 rows for categories with the lowest p value.

ID

Description

GeneRatio

BgRatio

pvalue

p.adjust

qvalue

Count

GeneRatioCalc

GO:0030669

clathrin-coated endocytic vesicle membrane

19/775

129/22283

1.098e-07

5.821e-05

4.902e-05

19

0.02452

GO:0042613

MHC class II protein complex

16/775

98/22283

2.603e-07

5.983e-05

5.038e-05

16

0.02065

GO:0032588

trans-Golgi network membrane

21/775

166/22283

3.386e-07

5.983e-05

5.038e-05

21

0.0271

GO:0045334

clathrin-coated endocytic vesicle

19/775

148/22283

9.707e-07

0.0001286

0.0001083

19

0.02452

GO:0005802

trans-Golgi network

30/775

333/22283

2.152e-06

0.0002281

0.0001921

30

0.03871

GO:0030658

transport vesicle membrane

29/775

334/22283

6.519e-06

0.0005758

0.0004849

29

0.03742

GO:0071556

integral component of lumenal side of endoplasmic reticulum membrane

16/775

127/22283

8.789e-06

0.0005823

0.0004903

16

0.02065

GO:0098553

lumenal side of endoplasmic reticulum membrane

16/775

127/22283

8.789e-06

0.0005823

0.0004903

16

0.02065

GO:0098576

lumenal side of membrane

16/775

134/22283

1.746e-05

0.0009373

0.0007893

16

0.02065

GO:0030665

clathrin-coated vesicle membrane

20/775

196/22283

1.768e-05

0.0009373

0.0007893

20

0.02581

GO:0042611

MHC protein complex

16/775

142/22283

3.605e-05

0.001737

0.001463

16

0.02065

GO:0016010

dystrophin-associated glycoprotein complex

6/775

20/22283

4.429e-05

0.001956

0.001647

6

0.007742

GO:0016342

catenin complex

7/775

32/22283

9.427e-05

0.003843

0.003236

7

0.009032

GO:0012507

ER to Golgi transport vesicle membrane

16/775

155/22283

0.000104

0.003938

0.003316

16

0.02065

GO:0030136

clathrin-coated vesicle

23/775

279/22283

0.0001259

0.004448

0.003746

23

0.02968

GO:0001772

immunological synapse

9/775

58/22283

0.0001643

0.005438

0.004579

9

0.01161

GO:0090665

glycoprotein complex

6/775

25/22283

0.0001744

0.005438

0.004579

6

0.007742

GO:0098791

Golgi apparatus subcompartment

33/775

484/22283

0.0002006

0.005905

0.004973

33

0.04258

GO:0097060

synaptic membrane

29/775

408/22283

0.0002412

0.006729

0.005667

29

0.03742

GO:0098984

neuron to neuron synapse

27/775

383/22283

0.000443

0.01163

0.009794

27

0.03484

GO:0031902

late endosome membrane

17/775

194/22283

0.0004608

0.01163

0.009794

17

0.02194

GO:0042383

sarcolemma

14/775

147/22283

0.0006283

0.01508

0.0127

14

0.01806

GO:0005604

basement membrane

11/775

99/22283

0.0006546

0.01508

0.0127

11

0.01419

GO:0032279

asymmetric synapse

25/775

357/22283

0.000781

0.01725

0.01452

25

0.03226

GO:0030134

COPII-coated ER to Golgi transport vesicle

16/775

188/22283

0.0009167

0.01943

0.01637

16

0.02065

GO:0030863

cortical cytoskeleton

12/775

120/22283

0.0009795

0.01957

0.01648

12

0.01548

GO:0034702

ion channel complex

23/775

323/22283

0.0009968

0.01957

0.01648

23

0.02968

GO:1990351

transporter complex

29/775

447/22283

0.001043

0.01974

0.01662

29

0.03742

GO:1990531

phospholipid-translocating ATPase complex

4/775

14/22283

0.0011

0.01991

0.01677

4

0.005161

GO:0005938

cell cortex

23/775

326/22283

0.001127

0.01991

0.01677

23

0.02968

GO:0005858

axonemal dynein complex

5/775

24/22283

0.001231

0.02105

0.01773

5

0.006452

GO:0031256

leading edge membrane

16/775

196/22283

0.001422

0.02355

0.01983

16

0.02065

GO:0045211

postsynaptic membrane

21/775

296/22283

0.001694

0.02721

0.02292

21

0.0271

GO:0030662

coated vesicle membrane

21/775

299/22283

0.001915

0.0288

0.02426

21

0.0271

GO:0030672

synaptic vesicle membrane

12/775

130/22283

0.001956

0.0288

0.02426

12

0.01548

GO:0099501

exocytic vesicle membrane

12/775

130/22283

0.001956

0.0288

0.02426

12

0.01548

GO:0098839

postsynaptic density membrane

10/775

100/22283

0.002525

0.03617

0.03046

10

0.0129

GO:0030176

integral component of endoplasmic reticulum membrane

20/775

287/22283

0.002653

0.03701

0.03117

20

0.02581

GO:0014069

postsynaptic density

23/775

351/22283

0.00291

0.03955

0.0333

23

0.02968

GO:0005770

late endosome

22/775

332/22283

0.003102

0.04035

0.03398

22

0.02839

GO:0099572

postsynaptic specialization

24/775

374/22283

0.003122

0.04035

0.03398

24

0.03097

GO:0031227

intrinsic component of endoplasmic reticulum membrane

20/775

295/22283

0.003624

0.04573

0.03851

20

0.02581

GO:0034703

cation channel complex

17/775

236/22283

0.003839

0.04732

0.03985

17

0.02194

GO:0019897

extrinsic component of plasma membrane

14/775

180/22283

0.004249

0.05088

0.04284

14

0.01806

GO:0005741

mitochondrial outer membrane

16/775

219/22283

0.00432

0.05088

0.04284

16

0.02065

GO:0030864

cortical actin cytoskeleton

9/775

92/22283

0.004716

0.05434

0.04576

9

0.01161

GO:0099634

postsynaptic specialization membrane

11/775

128/22283

0.005124

0.05778

0.04865

11

0.01419

GO:1990752

microtubule end

5/775

33/22283

0.005313

0.05867

0.0494

5

0.006452

GO:0031252

cell leading edge

27/775

457/22283

0.005492

0.05897

0.04966

27

0.03484

GO:0036157

outer dynein arm

3/775

11/22283

0.00561

0.05897

0.04966

3

0.003871

GO:0034704

calcium channel complex

8/775

78/22283

0.005675

0.05897

0.04966

8

0.01032

GO:0031968

organelle outer membrane

17/775

248/22283

0.00627

0.0639

0.05381

17

0.02194

GO:0098978

glutamatergic synapse

22/775

354/22283

0.006556

0.06529

0.05498

22

0.02839

GO:0030666

endocytic vesicle membrane

20/775

312/22283

0.006684

0.06529

0.05498

20

0.02581

GO:0019867

outer membrane

17/775

250/22283

0.006775

0.06529

0.05498

17

0.02194

GO:1902495

transmembrane transporter complex

25/775

421/22283

0.006917

0.06547

0.05513

25

0.03226

GO:0044224

juxtaparanode region of axon

3/775

12/22283

0.007288

0.0666

0.05608

3

0.003871

GO:1990454

L-type voltage-gated calcium channel complex

3/775

12/22283

0.007288

0.0666

0.05608

3

0.003871

GO:0030673

axolemma

4/775

23/22283

0.007588

0.06709

0.0565

4

0.005161

GO:0098858

actin-based cell projection

17/775

253/22283

0.007596

0.06709

0.0565

17

0.02194

GO:0032421

stereocilium bundle

7/775

66/22283

0.007875

0.06842

0.05762

7

0.009032

GO:0032433

filopodium tip

4/775

24/22283

0.008859

0.07573

0.06377

4

0.005161

GO:0099061

integral component of postsynaptic density membrane

6/775

53/22283

0.009933

0.08148

0.06861

6

0.007742

GO:0032589

neuron projection membrane

7/775

69/22283

0.009982

0.08148

0.06861

7

0.009032

GO:0099240

intrinsic component of synaptic membrane

13/775

179/22283

0.009992

0.08148

0.06861

13

0.01677

GO:0030135

coated vesicle

24/775

416/22283

0.01119

0.08985

0.07566

24

0.03097

GO:0032154

cleavage furrow

6/775

56/22283

0.01288

0.1004

0.08451

6

0.007742

GO:0099146

intrinsic component of postsynaptic density membrane

6/775

56/22283

0.01288

0.1004

0.08451

6

0.007742

GO:0044753

amphisome

3/775

15/22283

0.01395

0.1058

0.08913

3

0.003871

GO:0032420

stereocilium

6/775

57/22283

0.01398

0.1058

0.08913

6

0.007742

GO:0099699

integral component of synaptic membrane

12/775

168/22283

0.01468

0.1096

0.09227

12

0.01548

GO:0016459

myosin complex

6/775

58/22283

0.01515

0.1115

0.0939

6

0.007742

GO:0070382

exocytic vesicle

16/775

253/22283

0.01603

0.1164

0.09798

16

0.02065

GO:0034705

potassium channel complex

8/775

94/22283

0.01667

0.1194

0.1005

8

0.01032

GO:0008021

synaptic vesicle

15/775

234/22283

0.01729

0.1222

0.1029

15

0.01935

GO:0032153

cell division site

7/775

78/22283

0.01874

0.1307

0.1101

7

0.009032

GO:0098688

parallel fiber to Purkinje cell synapse

3/775

17/22283

0.0198

0.1363

0.1148

3

0.003871

GO:0099060

integral component of postsynaptic specialization membrane

7/775

80/22283

0.02125

0.1444

0.1216

7

0.009032

GO:0044306

neuron projection terminus

10/775

137/22283

0.02153

0.1444

0.1216

10

0.0129

GO:0043083

synaptic cleft

3/775

18/22283

0.02316

0.1534

0.1292

3

0.003871

GO:0098562

cytoplasmic side of membrane

14/775

222/22283

0.02375

0.155

0.1305

14

0.01806

GO:0030055

cell-substrate junction

26/775

493/22283

0.02398

0.155

0.1305

26

0.03355

GO:0005930

axoneme

11/775

161/22283

0.02538

0.1605

0.1352

11

0.01419

GO:0098948

intrinsic component of postsynaptic specialization membrane

7/775

83/22283

0.02544

0.1605

0.1352

7

0.009032

GO:0097014

ciliary plasm

11/775

162/22283

0.02641

0.1642

0.1382

11

0.01419

GO:0000118

histone deacetylase complex

7/775

84/22283

0.02695

0.1642

0.1382

7

0.009032

GO:0008076

voltage-gated potassium channel complex

7/775

84/22283

0.02695

0.1642

0.1382

7

0.009032

GO:0099568

cytoplasmic region

17/775

294/22283

0.02888

0.174

0.1465

17

0.02194

GO:0090543

Flemming body

4/775

34/22283

0.02945

0.1754

0.1477

4

0.005161

GO:0030496

midbody

13/775

209/22283

0.03151

0.1855

0.1562

13

0.01677

GO:0098982

GABA-ergic synapse

7/775

88/22283

0.0336

0.1949

0.1641

7

0.009032

GO:0032838

plasma membrane bounded cell projection cytoplasm

15/775

255/22283

0.03383

0.1949

0.1641

15

0.01935

GO:0030175

filopodium

9/775

128/22283

0.03486

0.1971

0.166

9

0.01161

GO:0032426

stereocilium tip

3/775

21/22283

0.03496

0.1971

0.166

3

0.003871

GO:0035869

ciliary transition zone

6/775

71/22283

0.03687

0.2057

0.1732

6

0.007742

GO:0000781

chromosome, telomeric region

12/775

193/22283

0.03788

0.2091

0.1761

12

0.01548

GO:0030315

T-tubule

5/775

54/22283

0.03916

0.214

0.1802

5

0.006452

GO:0005912

adherens junction

12/775

195/22283

0.04047

0.2189

0.1843

12

0.01548

GO:0044304

main axon

6/775

74/22283

0.04378

0.228

0.192

6

0.007742

GO:0099023

vesicle tethering complex

6/775

74/22283

0.04378

0.228

0.192

6

0.007742

[1] “”


These plots show connections among categories:

Enrichment map. Categories are connected by genes in common. Dot size indicates number of genes, dot color indicates adjusted _p_ value.

Enrichment map. Categories are connected by genes in common. Dot size indicates number of genes, dot color indicates adjusted p value.

Gene-concept network. Categories (brown dots) are linked by genes in common (gray dots). The size of category dots indicates gene count.

Gene-concept network. Categories (brown dots) are linked by genes in common (gray dots). The size of category dots indicates gene count.

4.2 Disease Ontology

Here it is a barplot of most significantly enriched DO categories.

Barplot for enriched categories. Values on top have lower p values.

Barplot for enriched categories. Values on top have lower p values.

The most significant category was ‘progressive familial intrahepatic cholestasis’.

4.3 Network of Cancer Genes

No significant results were found in NCG.